Third Brain V8.1 Skills
LLM wiki kit
First committed by Mark393295827
Published in Mark393295827/third-brain-v7-skills. Publisher page
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What it is
agent wiki +engineering skills
AutoGineer overview, from the brain’s own files
Third Brain V8.1 provides a structured, verification-first operating model for AI agents, treating the LLM as a CPU, context as RAM, and an Obsidian vault as a durable disk. It offers 21 reusable agent skills designed to manage knowledge ingestion, daily loops, research, and multi-agent orchestration. The system enforces strict provenance, governance, and quality gates, ensuring that agent actions are backed by evidence and that knowledge compounds over time through a structured taxonomy.
How it works
Memory model: LLM wiki
AutoGineer overview, from the brain’s own files
The system organizes information into a structured folder hierarchy including sources, concepts, entities, and maps. It uses a 5-stage worker assembly pipeline (Ingest, Cognitive, GraphWeaver, Governance, Deliverable) to process information. Skills are executed as programs within a harness that provides scheduling, permissions, and observability. It relies on a transactional runtime to manage state and ensure that all knowledge updates are verified and linked within the Obsidian vault.
| Folder | Role | Files |
|---|---|---|
| .github | agent-config | 5 |
| assets | attachments | 5 |
| commands | agent-instructions | 4 |
| docs | docs | 21 |
| examples | examples | 10 |
| hooks | hooks | 1 |
| skills | agent-instructions | 40 |
| sources | raw-sources | 13 |
| tests | tests | 8 |
| tools | scripts | 51 |
| adapters | folder | 2 |
| artifacts | folder | 28 |
| contracts | folder | 18 |
| core | folder | 6 |
| experiments | folder | 7 |
| maps | folder | 1 |
| outreach | folder | 46 |
| system | folder | 33 |
| workflows | folder | 1 |
Requirements
Works with: Claude Code, OpenAI Codex, GitHub Copilot, Cursor, Gemini CLI, Kiro, OpenCode, Amp, Cline, JetBrains Junie, Devin (ex-Windsurf)
Set it up
This brain runs code automatically: 2 scripts. Review install.ps1, install.sh before opening the folder in Claude Code. No step below turns a hook on for you.
install.ps1:pwsh install.ps1install.sh:sh install.sh
Clone the repository at the commit AutoGineer scanned:
git clone https://github.com/Mark393295827/third-brain-v7-skills.git && cd third-brain-v7-skills && git checkout 5a645148a108d71c76521715117b737ae60b1423Claude Code reads CLAUDE.md from this folder automatically.
cd third-brain-v7-skills && claude
AutoGineer scanned these files at commit 5a64514.
First committed by Mark393295827. Published in Mark393295827/third-brain-v7-skills. Licence: MIT License.
Usage
AutoGineer overview, from the brain’s own files
- Ingesting research papers or articles into a linked wiki
- Running daily knowledge loops to compound insights
- Enforcing verification gates before claiming task completion
- Orchestrating multi-agent teams with isolated write scopes
- Managing context budgets and state checkpoints for long-running tasks
- “Use wiki-ingest on this source. Stage an immutable source, author a governed concept candidate, plan navigation updates, and return a verification summary.”
- The agent creates an immutable note in the sources folder, updates the relevant concept pages in the wiki, and provides a summary of the verification steps taken.
- “Run the daily-okr skill for today.”
- The agent executes the 7-KR cycle, generating a daily insight, updating the wiki, and producing a receipt for the completed work.
Documentation by Mark393295827
Third Brain V8.1 Skills
<p align="center"> <img src="assets/third-brain-v8.1-actual-system-architecture.png" alt="Third Brain V8.1 actual Codex OS architecture: Codex host, repository control plane, transactional worker runtime, live Obsidian Vault, verification evidence, and declared debt" width="900"> </p>
Verification-first Agent Skills for Codex OS, with optional compatibility adapters for Claude Code, Gemini, Cursor, and Windsurf. Build a persistent knowledge operating system with Obsidian provenance, scheduled loops, bounded static dependency graphs, context management, and multi-agent orchestration.
Install 21 reusable agent skills for ingesting sources, auditing workflows, compiling interlinked wikis, running daily knowledge loops, verifying claims before shipping, managing token costs, engineering bounded loops and static dependency graphs, and orchestrating multi-agent teams.
Use this if:
Your AI agent keeps forgetting context between sessions
You want to enforce verification gates before "done" claims
You need to structure knowledge as linked pages (like Obsidian) instead of scattered chat history
You're building agent workflows that should learn and compound over time
You want Obsidian wiki knowledge to update skills, SOPs, schemas, and automation through supervised promotion gates
Image: GitHub stars Image: License: MIT Image: Codex OS Image: Claude Code Image: Cursor Image: PRs Welcome
Quick Start
1. Clone & Install
git clone https://github.com/Mark393295827/third-brain-v5-skills.git
cd third-brain-v5-skills
bash install.sh codex # Codex is the primary host/kernelWindows PowerShell uses .\install.ps1 codex. Compatibility adapters require an explicit non-Codex target.
2. Try a Skill
Paste this into Codex:
Use wiki-ingest on this source. Stage an immutable source, author a governed concept candidate, plan navigation updates, and return a verification summary. Treat entity authoring as a separate reviewed capability.Then paste a URL, article, PDF text, or any source you want to capture.
3. Next Steps
See the 3-Minute Quickstart for a complete walkthrough.
Full guide: GUIDE.md
Command centre and distribution: V8.1 Codex Agentic OS command centre. Start it with python tools/agentic_os_server.py --state-root .agentic-os-state; the host is localhost-only by default and requires T02 runtime receipts. Claude/Gemini/Cursor/Windsurf remain compatibility adapters, not the primary runtime.
中文历史进阶手册:V7 最大潜力使用手册(参考)
🔥 V8.1 多智能体 Worker 流水线手册 & Worker Flows 规范:事务式流水线(Stage → Author → Graph Plan → Govern → Commit/Postcheck → optional Deliverable),归档只发生在验证提交之后。
The Problem
| Scenario | Before | After |
|---|---|---|
| Research PDF | Summarized once, then forgotten | wiki-ingest: source notes, concept pages, linked wiki |
| Coding session | Agent: "I fixed it" (no proof) | verify-before-claim: requires test output + exit code before any claim |
| Daily work | Tasks and ideas scatter across chat | daily-okr: one insight, one wiki update, one action, one output, daily score |
V8.1 Operating Model
V8.1 keeps the wiki as durable disk and governance, gives every skill a profile-aware execution contract, and makes python -m tools.worker_flow.cli the only canonical transactional runtime:
Input -> Source -> Wiki compile -> Daily loop -> Agent/Wiki flywheel -> Skill/SOP upgrade -> VerificationThe upgrade adds seven hard defaults:
Profiles match risk: one-shot, stateful, loop, and high-risk work load only the controls they need.
Source provenance stays immutable: raw source notes and block refs remain the audit layer.
Loops have contracts: Trigger -> Execute -> Verify -> State, with budgets and recovery.
Context is zero-overhead by default: hot paths load only what the task needs.
Automation is bounded: scans and queues can run unattended; semantic writes stay supervised.
Teams need ownership: multi-agent work requires write scopes, IPC, join gates, cleanup, and evidence.
Rules promote through evidence: wiki insights become schema or skill rules only after repeated support and a cheap check.
See the V8.1 Worker Flow, the Agent Skills standard, and the historical V7 release notes.
V8.1 keeps graph-engineering bounded to static DAGs; dynamic expansion and cyclic graphs remain out of scope.
Core Skills (Start Here)
🧠 Knowledge & Verification
| Skill | What it does |
|---|---|
| wiki-ingest | Preserve an immutable source, compile linked understanding, enforce promotion boundaries, and verify every touched file. |
| verify-before-claim | Iron rule: no completion claim without fresh, scope-matched evidence; consequential actions also require independent verification, approval, and rollback. |
📅 Daily Loop
| Skill | What it does |
|---|---|
| daily-okr | Execute a 7-KR cycle: Input → Cognition → Wiki → Behavior → Creativity → Output → Feedback, with an artifact or receipt for every completed KR. |
🎯 Behavior & Creativity
| Skill | What it does |
|---|---|
| behavior-design | Turn outcomes into observable minimum behavior, cues, SOPs, recovery, evidence, and review. |
| creativity-engine | Generate mechanism-diverse options, rank evidence gaps, and define three bounded minimum experiments. |
🔬 Research & Quality
| Skill | What it does |
|---|---|
| deep-research | STOW-compatible research harness with evidence trails, source/claim ledgers, privacy checks, and direct handoff to wiki-ingest. |
| session-learn | Extract knowledge patterns from sessions — concepts, entities, corrections, patterns, ideas, decisions, gaps. Closure protocol ensures learning feeds back into the wiki. |
📊 Context & Engineering
| Skill | What it does |
|---|---|
| context-manager | Derive budgets at runtime, checkpoint state, compact with KEEP/SUMMARIZE/DROP/RETRIEVE, and route by capability. |
| loop-engineering | Control temporal depth: turn repeatable work into a bounded Trigger -> Execute -> Verify -> State loop with durable state, finite budgets, and explicit stop/recovery rules. |
| graph-engineering | Control dependency width: validate bounded static DAGs with explicit dependencies, independent branches, typed joins, and node-local recovery. |
| agentic-engineering | Design agent workflows as spec-driven macro actions with quality ceilings, verification gates, delegated-action boundaries, and state checkpoints. |
| harness-engineering | Provide the runtime scheduler, permissions, leases, tools, provenance, and observability needed to execute agent workflows safely. |
| agent-teams-command | Admit and command multi-agent processes with exclusive ownership, typed IPC, isolated writes, serial integration, evidence, and cleanup. |
Complete Skill List
📥 Ingestion & Knowledge
wiki-ingest— Stage immutable sources, author governed concept candidates, plan graph updates, and hand off optional entity authoring for separate reviewknowledge-ops— Multi-layer knowledge management: classify, deduplicate, preserve evidence hierarchy, vector + Markdown retrievalwiki-lint— Health check: P0/P1 graph health, frontmatter, source refs, wikilink density, provenance debt
🔄 Daily Workflow
daily-okr— 7-KR evidence cycle with minimum-day degradation and durable closeoutcognitive-compile— 8-section framework: Question → Facts → Concepts → Pattern Recognition → Conflict Detection → Hypothesis Generation
🎨 Behavior & Creativity
behavior-design— Outcome → minimum behavior → cue → SOP → evidence → reviewcreativity-engine— Mechanism-diverse combinations, scoring, and falsifiable minimum tests
🔬 Research & Quality
deep-research— STOW-compatible research harness, evidence trails, source/claim ledgersverify-before-claim— Fresh scope-matched evidence, independent checks, approval, rollback
🔄 Learning & Flow
session-learn— 7 signal types: concepts, entities, corrections, patterns, ideas, decisions, gapsproject-flow-ops— Execution flow: triage, plan, track, review across projects
📊 Context
context-manager— Runtime budgets, checkpoint replay, compaction, retrieval, capability routing
Utility command: commands/token-cost-tracker.md estimates, logs, and reports token usage; it is not one of the 21 Agent Skills.
🏗️ Engineering
loop-engineering— Temporal depth through bounded loop contracts, independent verification, finite budgets, and stop/recovery rulesgraph-engineering— Dependency width through bounded static DAGs, explicit branches, typed joins, and node-local recoveryagentic-engineering— Spec-driven macro actions, quality ceilings, verification gates, state checksharness-engineering— Runtime scheduler, permissions, system-call tools, delegated gates, provenance, observabilityagent-teams-command— Multi-agent process ownership, IPC, integration, async budgets, and evidence gates
💼 Strategy & Operations
startup-evaluation— Startup health: entrepreneurship, VC 5T, PMF, runway, team, unit economicsanthropic-os— Governed operating-system experiments: Four-C, 3B, prediction errors, permission ladderai-six-sigma-property-os— AI + Ontology + DMAIC for property work orders, dispatch, quotes, evidence
How These Skills Fit Together
LLM (CPU) + Context (RAM) + Wiki (Disk)
External Sources ──→ wiki-ingest + knowledge-ops ──→ Knowledge Layers
↓
Daily Loop (daily-okr)
/ / \ \ \
Input Cognition Wiki Behavior Creativity
|
Output → Feedback
↓
session-learn (extract patterns)
↓
verify-before-claim (quality gate)
↓
Loop depth / Graph dependency width
↓
Multi-agent teams (agent-teams-command)The system is a closed loop: ingest sources → process daily → extract learning → verify claims → promote rules → scale to teams.
Architecture & Design
Third Brain V8.1 treats agents as LLM OS processes:
LLM = CPU
Context = RAM
Wiki/Obsidian = Disk
Tools = System calls
Skills = Executable programs
Harness = Kernel
Agent teams = Processes
Design Layers
| Layer | Principle | Skills |
|---|---|---|
| 🧠 Knowledge OS | Capture, structure, lint, and promote knowledge over time | wiki-ingest, knowledge-ops, wiki-lint |
| ⚡ Daily Loop | Close the knowledge-to-action cycle every day | daily-okr, cognitive-compile |
| 🎯 Behavior & Creativity | Turn knowledge into habits and novel ideas | behavior-design, creativity-engine |
| 🔬 Research & Quality | Verify before claiming, research with rigor | deep-research, verify-before-claim |
| 🔄 Continuous Learning | Extract patterns from every session | session-learn, project-flow-ops |
| 📊 Context | Manage hot context, durable checkpoints, and runtime budgets | context-manager |
| 🏗️ Engineering | Design bounded loops, static dependency graphs, harnesses, agent workflows, and multi-agent systems | loop-engineering, graph-engineering, agentic-engineering, harness-engineering, agent-teams-command |
| 💼 Strategy & Operations | Evaluate startups, design AI quality systems | startup-evaluation, anthropic-os, ai-six-sigma-property-os |
Engineering boundaries are deliberate: Loop Engineering controls temporal depth; Graph Engineering controls dependency width; Agent Teams Command controls process ownership, IPC, and integration; Harness Engineering supplies the runtime scheduler, permissions, and observability. A graph node may contain a Loop or Agent Team, but V8.1 does not support dynamic or cyclic graphs.
Skill Adoption Path
Start small. Add skills as you need them.
| Stage | Core Skills | Unlock When |
|---|---|---|
| Week 1 | wiki-ingest + verify-before-claim | You can ingest 1 source/day + every claim has fresh evidence |
| Weeks 2-4 | + daily-okr + session-learn | Daily artifacts and verified learnings feed back to the wiki |
| Month 2+ | + cognitive-compile + behavior-design + creativity-engine | Wiki has 50+ pages or repeated decisions need synthesis |
| Month 3+ | + knowledge-ops + loop-engineering + harness-engineering + agentic-engineering | Retrieval, looping reliability, permissions, or delegated actions become bottlenecks |
| Dependency graph | + graph-engineering after loop-engineering | Explicit dependencies, independent branches, typed joins, or node-local recovery create more value than orchestration and review cost |
| Multi-agent | + agent-teams-command + project-flow-ops | Work splits into separate owners with clear integration gates |
| Strategy | + startup-evaluation + anthropic-os + deep-research | Need startup health, market, operating-system decisions |
| Operations | + ai-six-sigma-property-os | Need measurable service quality, dispatch, evidence loops |
Installation
For Codex CLI (Primary host/kernel)
# Personal skills (available across all projects)
bash install.sh codexFor Cursor
bash install.sh cursorFor Windsurf
bash install.sh windsurfCompatibility adapters: Claude Code / Gemini CLI
bash install.sh claude
bash install.sh geminiFull guide: GUIDE.md
Example Workflows
Each workflow is copyable into your agent. See examples/ for complete, verified examples:
3-minute quickstart — Fastest path to useful output
Research PDF to wiki — Turn a source into linked pages
Verified code session — Use verification gates before claiming a fix
Daily knowledge loop — Run a compact daily OKR workflow
Startup evaluation sprint — Turn an idea into validated assumptions
Wiki Structure
Skills default to STOW paths (configurable via system/config.md):
sources/ ← Immutable source notes (articles, PDFs, transcripts)
wiki/
├── concepts/ ← 13 contracted domains
├── entities/ ← people, companies, funds-investors, products, orgs
└── outputs/ ← gmail-digests, evaluations, compilations
maps/
├── domain-mocs/
├── system-indexes/
├── project-maps/
└── canvases/
system/ ← Deployed contracts, config, schema, templates, runsTools & References
| Resource | Purpose |
|---|---|
| tools/index.html | V8.1 visual skill navigator |
| tools/token-calculator.html | Historical V5 cost-model calculator; not a runtime authority |
| GUIDE.md | Full installation & troubleshooting |
| V7 最大潜力使用手册(历史参考) | Earlier profile、知识飞轮、Agent 工程、治理和 30 天采用路径 |
| CLAUDE.md | Claude Code setup |
| CONTRIBUTING.md | How to contribute skills |
What This Is NOT
Not a chat wrapper. Skills are executable prompts that agents follow; they're not productivity theater.
Not a productivity tool with 100 metrics. Daily OKR has seven causally linked KRs with evidence.
Not an all-in-one framework. Pick skills incrementally. You don't need all 20 to start.
Not prescriptive. Adapt paths, frontmatter, and skill triggers to your workflow.
Philosophy
Three core principles:
Verification first: No "done" without proof. No claims without evidence. Expected value over confidence.
Knowledge compounds: Every session should improve the wiki, not scatter across chat history.
Closed loops: Ingest → Process → Learn → Scale → Verify. No loose ends.
Related Work
Agent Skills Format — Open specification for agent skills
llm-wiki-agent — Original STOW pattern implementation by SamurAIGPT
Karpathy LLM OS — Conceptual framework
Contributing
Bug reports, skill improvements, and PRs are welcome. See CONTRIBUTING.md and CHANGELOG.md.
License
MIT — see LICENSE.
Transparency Note
This project includes growth and outreach tools (in tools/ and outreach/) designed to help the repository reach users via GitHub search and Awesome lists. These tools are optional, dry-run-by-default, and separate from the core skills. If you're installing skills for your own workflow, you don't need them.
The skill frameworks and philosophy are genuine. Use what works for you; ignore what doesn't.
docs/v8.1-current-model-obsidian-blueprint.md
title: "Third Brain V8.1 Current-Model × Obsidian Blueprint" type: architecture-blueprint status: proposed version: "8.1.0-proposal" created: "2026-08-16" updated: "2026-08-16" decision_owner: vault-owner implementation_status: not-started
Third Brain V8.1 Current-Model × Obsidian Blueprint
Decision: keep the repository as the executable control plane, keep Obsidian Markdown as the canonical knowledge and evidence plane, and connect them through a transactional worker runtime. Use a serial command spine with bounded fan-out only for disjoint artifacts. No live-vault mutation is authorized by this blueprint.
1. Objective and boundaries
Objective
Evolve the current V8 scaffold into a resumable, evidence-bound pipeline that can safely ingest new material, retrofit previously imported concept pages to the Gold Standard, weave the Obsidian graph, and produce verifiable outputs at the scale of the current vault.
The target lifecycle is:
discover -> stage -> compile -> graph-plan -> independently verify -> commit -> archive -> optionally deliver
Non-goals
Do not bulk-rewrite all existing notes.
Do not mutate immutable source evidence to repair metadata debt.
Do not let parallel workers write
Home.md,中央索引.md, shared MOCs, dashboards, or logs directly.Do not fabricate URL, author, date, source anchors, evidence, metrics, or counterarguments.
Do not treat a successful process exit, file count, or placeholder artifact as semantic success.
Do not bind the design to one fixed model name. Route work by capability and verify its artifacts.
Do not archive a clipping before the committed artifacts pass their required gates.
2. Evidence-based starting point
The blueprint is based on a read-only inspection of the repository and the live vault on 2026-08-16.
| Surface | Observed state | Architectural consequence |
|---|---|---|
| Vault scale | 1,231 sources, 1,669 concepts, 707 entities, 74 outputs, and 39 map files | Whole-vault rewrites are too risky; use touched-set gates and bounded migration batches. |
| Version contract | AGENTS.md and GEMINI.md describe V8.0; README.md, CLAUDE.md, system/config.md, and system/schema.md still describe V7/V7.2 | Introduce one machine-readable contract version and publish it to both planes. |
| Template authority | The repo and live-vault template-concept-gold-standard.md have different SHA-256 hashes and materially different fields | Reconcile them into one V8.1 schema/template package; never copy in either direction without a version/hash check. |
| Current engine | The five-stage engine can emit files, but GraphWeaver returns Pending Manual Review as SUCCESS, Governance reports counts without validating links/YAML/block refs, and Deliverable always emits a generic output | Treat the engine as a scaffold, not a production verifier. Split deterministic execution, semantic authoring, integration, and verification. |
| Current tests | Five worker-flow tests pass, including the placeholder GraphWeaver/Governance behavior | Replace artifact-existence tests with contract, failure, idempotency, provenance, and recovery tests. |
| Live governance | The latest scan reports 54 broken source refs, 1,125 source-provenance debt items, 7,759 unresolved wikilinks, and 2,792 notes missing V5 fields | A full-vault-green gate would deadlock ingestion. Require zero new P0/P1 defects in touched files and no regression against the recorded global baseline. |
| Dashboard behavior | Repeated Daily Knowledge Loop Snapshot sections coexist, while the headline still claims a 94.5%+ integrity score | Dashboards must be generated from immutable run receipts into one keyed machine-owned block. |
| Writer topology | Python ingest, multi-agent, adaptation, auto-heal, KPI, and PowerShell queue scripts can all touch vault state | Establish one commit owner, explicit writer leases, and compatibility adapters for legacy entry points. |
| Path resolution | Multiple scripts default to a personal absolute vault path | Resolve --vault first, then environment/config, and fail closed if the vault fingerprint is ambiguous. |
3. System boundary and sources of truth
flowchart LR
subgraph Repo["Repository — executable control plane"]
Contracts["Schemas + templates + workflow contracts"]
Runtime["Scheduler + state machine + compatibility adapters"]
Tests["Contract tests + migration tests"]
end
subgraph Run["Transactional run boundary"]
Command["Commander + command board"]
Stage["Per-run staging + typed IPC receipts"]
Integrator["Single integration owner"]
Verifier["Independent governance verifier"]
end
subgraph Vault["Obsidian — canonical knowledge/evidence plane"]
Inbox["Clippings / inbox"]
Sources["Immutable sources"]
Wiki["Concepts + entities + outputs"]
Maps["MOCs + Home + Central Index + Canvas"]
Ledger["Run receipts + debt queues + dashboards"]
end
Contracts --> Command
Runtime --> Command
Inbox --> Command
Command --> Stage
Stage --> Verifier
Verifier -->|promotion receipt| Integrator
Integrator --> Sources
Integrator --> Wiki
Integrator --> Maps
Integrator --> Ledger
Integrator -->|after commit| Inbox
Tests --> Verifier| Object | Canonical owner | Rule |
|---|---|---|
| Skill contracts, note schemas, templates, workflow definitions, runtime, migrations, and tests | Repository | Changes are reviewed and versioned here first. |
| Source evidence, compiled knowledge, entities, maps, outputs, and decisions | Obsidian vault | Markdown remains the durable canonical store. |
Generated SOP mirrors in wiki/sops/ | Repository-derived, vault-resident | Carry generated_from, contract_version, and source_hash; local commentary belongs in a separate overlay block/file. |
| Run state and evidence receipts | system/runs/YYYY-MM/<run_id>/ in the vault | Append-only receipts; staging is disposable only after a verified commit. |
| Dashboards and indexes | Derived views | Rebuildable from canonical files and run receipts; never the sole evidence source. |
Contract publication rule
Every generated artifact records at least:
contract_version: "8.1.0"
template_id: "concept-gold-standard"
template_version: "8.1.0"
run_id: "run-..."
source_id: "src-..."
source_hash: "sha256:..."The repository and deployed vault template must have the same declared version and content hash before a write-capable run starts.
4. Command program and team admission
This design applies the three required command lenses:
| Lens | Concrete implementation |
|---|---|
| Ender / command intent | One commander publishes objective, non-goals, priorities, stop rules, and shared-intent hash. Workers own bounded artifacts, not strategy. |
| Palantir / object-action ontology | Sources, concepts, entities, graph deltas, findings, decisions, and receipts are typed objects; stage, verify, commit, archive, and rollback are explicit actions. |
| Von Neumann / executable control | A persisted state machine, typed IPC, deterministic tools, checkpoints, verifier, and promotion instruction make the workflow replayable. |
Team admission decision
One clipping: no five-agent fan-out. One commander runs the serial spine, invokes deterministic tools, uses one semantic author where needed, and requests an independent verification context before commit.
Two or more disjoint clippings/concepts: fan out only per-source and per-concept staging. Default semantic concurrency is 2 and remains configurable.
Shared maps, indexes, dashboards, logs, archive state, and final promotion: always single-writer and serial.
Consequential or low-evidence promotion: add a human approval gate; agent count does not substitute for evidence.
Command program
mission_id: obsidian-v8.1-<run_id>
objective: create evidence-grounded canonical knowledge without provenance or graph regression
non_goals:
- rewrite_unselected_notes
- fabricate_missing_evidence
- parallel_write_shared_artifacts
commander: run-coordinator
integration_owner: vault-commit-owner
independent_verifier: governance-checker
shared_intent_hash: sha256(normalized mission + contract versions + permissions)
checkpoint_path: system/runs/YYYY-MM/<run_id>/state.json
command_board_path: system/runs/YYYY-MM/<run_id>/command-board.md
artifact_manifest_path: system/runs/YYYY-MM/<run_id>/manifest.json
max_attempts_per_failure_signature: 2
promotion_rule: all required receipts green + preimage hashes unchanged
stop_states:
- NEEDS_INPUT
- INSUFFICIENT_EVIDENCE
- BLOCKED_DEPENDENCY
- BLOCKED_PERMISSION
- VERIFY_FAILED
- NO_PROGRESS
- BUDGET_STOP5. Current-model execution strategy
The current model should be used where semantic judgment creates value; exactness belongs to deterministic tools.
| Capability profile | Responsibilities | Must not own |
|---|---|---|
deterministic-runtime | Scan, normalize paths, hash, parse explicit metadata, detect identity, render templates, validate schemas/links/anchors, compare preimages, commit, archive | Unsupported semantic claims or topic synthesis |
reasoning-author | Reconstruct thesis, mechanisms, boundaries, falsifiers, comparison dimensions, implications, timeline, and meaningful links from supplied evidence | Direct writes to shared maps or archive state |
graph-planner | Produce a typed graph delta from existing neighbors and domain maps | Applying shared-file changes |
independent-checker | Verify provenance, claim-to-anchor support, understanding, no placeholders, graph delta, and exact post-write state using a fresh context manifest | Editing the authored artifact during the same check |
human-approver | Resolve ambiguous merges, high-impact rule promotion, source deletion, or consequential publication | Routine deterministic validation |
The model receives a compact context_manifest, not the whole vault or a prior worker chat transcript. The manifest contains only the contract version, source identity/hash, selected evidence blocks, candidate target, relevant neighbors/MOCs, allowed paths, known baseline debt, budget, and stop rules.
6. Five worker contracts plus control roles
Control roles
Commander: owns intent, task graph, leases, context manifests, budget, and recovery decisions.
Integration Owner: is the only process allowed to promote staged files and mutate shared artifacts.
Independent Verifier: evaluates staged artifacts and post-commit state; it cannot silently repair the author’s work.
Worker assembly
| Stage | Exclusive territory | Inputs | Required artifact/receipt | Promotion gate |
|---|---|---|---|---|
| W1 Ingest | One clipping and one staged source candidate | Raw clipping, vault fingerprint, source identity rules | Immutable full source candidate, normalized metadata with explicit unknowns, SHA-256, 3–7 stable anchors, duplicate decision | Exact identity checked before staging and again before commit; no source truncation |
| W2 Cognitive | One staged concept/entity delta | Source anchors, canonical template, relevant existing notes | Gold-Standard concept/entity candidate with thesis, causal mechanism, evidence boundary, falsifier, adaptable Mermaid, paradigm matrix, key data, implications, links, and timeline | Every factual claim has a resolvable locator; no unresolved template tokens |
| W3 GraphWeaver | One graph-delta plan | Candidate note, neighbor query, domain MOC slice | Typed add/remove edge plan plus expected preimage hashes for MOC/Home/Central Index/Canvas | No direct shared-file write; at least two meaningful links or an explicit isolation reason |
| W4 Governance | Read-only touched set and staged deltas | All stage receipts, schemas, preimages, baseline debt | Deterministic lint receipt, semantic understanding decision, regression delta, commit/deny decision | All P0/P1 touched-set checks green; global debt does not worsen |
| W5 Deliverable | One optional output candidate | Verified concepts plus an explicit output trigger | Decision memo, evaluation, compilation, or daily-loop artifact with evidence table and owner/action fields | Runs only when requested or when a configured decision/output threshold is met |
W5 is not a mandatory side effect of every clipping. A generic deliverable created only to make a pipeline look complete is a quality failure.
7. Typed IPC and durable state
Every worker returns the same envelope:
{
"task_id": "task-...",
"run_id": "run-...",
"state": "DONE",
"context_manifest": {
"contract_version": "8.1.0",
"vault_fingerprint": "sha256:...",
"allowed_write_paths": ["system/runs/.../staging/..."],
"budget": {"attempt": 1, "max_attempts": 2}
},
"artifact": [{"path": "...", "sha256": "...", "expected_preimage_sha256": null}],
"artifact_hash": "sha256:manifest-hash",
"evidence": [{"check": "source-anchor-resolution", "status": "PASS", "receipt": "..."}],
"decision": {"promotion": "ALLOW"},
"unknowns": [],
"dependency": ["task-upstream"],
"termination_reason": null,
"next_action": "submit_to_governance"
}State transition
DISCOVERED -> CLAIMED -> STAGED -> AUTHORED -> GRAPH_PLANNED -> VERIFIED -> COMMITTED -> ARCHIVED
A failure transitions to one explicit stop state and persists evidence plus
next_action.A retry resumes the failed node; it does not replay completed writes or append duplicate log entries.
A repeated failure signature after a changed strategy stops at attempt 2.
archiveis legal only afterCOMMITTEDand successful post-commit verification.A transient failure leaves the clipping in place. A terminal failure may invoke the existing
failqueue action only after its failure receipt is persisted.
8. Transaction and write protocol
Preflight: resolve and fingerprint the vault; load contract/template hashes; record permissions and the global debt baseline.
Discover: scan queue without mutation; create source identities and an idempotency key from operation, canonical source identity, target, and run/batch.
Stage: workers write candidates only under
system/runs/<run_id>/staging/.Plan: produce concept/entity and graph deltas with expected target preimage hashes.
Verify: W4 checks schema, links, block refs, source immutability, placeholders, understanding, taxonomy, and no-regression rules.
Commit serially: Integration Owner rechecks identity and preimages, promotes canonical files, applies graph deltas in dependency order, and appends one idempotent receipt.
Verify post-commit: read touched files from disk and repeat the cheapest direct checks against final paths.
Archive: invoke the clipping archive adapter only after the commit receipt is green.
Close: persist the final manifest, update one keyed dashboard block, remove disposable staging, release leases, and record a short after-action review.
Rollback may remove or restore derived concept/map writes from the transaction manifest, but it must not erase original source evidence or append-only receipts.
9. Canonical concept template and retrofit lane
V8.1 template decision
Neither current template should be copied wholesale over the other. The V8.1 canonical template should merge:
the live vault template’s flexible Mermaid topology selection, richer mechanism decomposition, URL/author/date fields, and five-dimension comparison matrix;
the repo template’s explicit evidence level, knowledge stage, evidence boundary, falsifier, exact locators, actionable implications, governance constraint, and claim-level source anchors.
One schema should validate the data model; Markdown templates should be renderers of that schema. The live template named by the user is the structural/visual baseline for retrofits, with the stronger provenance gates restored before migration begins.
Previously imported concept retrofit
Run retrofits as a separate migration lane so they cannot block live clipping ingestion.
Build an immutable candidate manifest using import markers, source backlinks, template version, unresolved placeholders, or missing Gold-Standard sections.
Partition candidates by domain/MOC and source availability.
Classify each page:
STRUCTURE_ONLY: content is supported; normalize fields/sections without changing claims.EVIDENCE_RESTORABLE: source exists; the reasoning author may rebuild semantic sections from resolvable anchors.INSUFFICIENT_EVIDENCE: preserve the page, mark the debt, and do not invent missing content.
Generate a page-level before/after diff, source-anchor ledger, graph delta, and rollback entry.
Verify every changed claim and locator, then commit one bounded domain batch at a time.
Re-run touched-set lint and compare global health counts after each batch.
The first retrofit canary should be a small, representative set from one domain, including one clean page, one broken-source page, and one duplicate/title-collision case.
10. Governance and quality gates
Required touched-set gates
Vault identity, contract version, and template hash match the run manifest.
Source identity is unique at commit time; reruns converge to one canonical source and one logical receipt.
Immutable source content equals its recorded SHA-256 after commit.
Every required block locator exists and every derived claim resolves to an allowed source locator.
Required YAML fields pass the note-type schema.
No
{{...}}, placeholder prose, generic metrics, orPending Manual Reviewis accepted as success.New wikilinks resolve, or the artifact records an explicit reviewed isolation/debt decision.
Concept pages pass the understanding gate: thesis, mechanism, boundary, falsifier/counterpoint, and reusable implication.
Shared artifacts were changed only by the Integration Owner and their preimage hashes matched.
Post-commit file hashes and archive state match the final manifest.
Global migration gate
Legacy debt is tracked separately from new defects:
touched files: zero new P0/P1 findings;
whole vault: no increase in broken source refs, unresolved links, missing required fields, or duplicate machine-owned dashboard blocks;
debt reduction claims: only from fresh full or explicitly scoped scans with paths, exclusions, and counts.
Dashboard rule
Replace repeated appended snapshots with one marker-bounded block per dashboard producer, keyed by producer and snapshot type. History lives in run receipts, not duplicated dashboard sections.
11. Target project layout
contracts/
vault-contract.yaml
ipc/worker-receipt.schema.json
notes/source.schema.json
notes/concept.schema.json
notes/entity.schema.json
notes/output.schema.json
workflows/
obsidian-worker-flow-v8.1.yaml
tools/
worker_flow/
cli.py
engine.py
state.py
transactions.py
stages/
validators/
worker_flow_engine.py # compatibility facade during migration
tests/
contracts/
integration/
migration/
system/templates/
template-source-v8.1.md
template-concept-gold-standard-v8.1.md
template-output-deliverable-v8.1.mdVault runtime state:
system/runs/YYYY-MM/<run_id>/
command-board.md
state.json
manifest.json
receipts/
staging/
rollback.jsonLegacy entry-point disposition
| Current entry point | V8.1 role |
|---|---|
tools/worker_flow_engine.py | Compatibility CLI that delegates to the new runtime until callers migrate |
tools/run_30min_clippings_pipeline.py | Deprecated authoring path; retain only as a queue/runtime adapter during transition |
tools/multi_agent_vault_team.py | Replace with the command board and bounded worker topology |
tools/adapt_skills_to_vault.py | Convert to dry-run-first, hash-aware SOP publisher; no unconditional overwrite/log append |
system/scripts/run-clippings-pipeline.ps1 | Keep as a minimal scan/archive/fail queue adapter; it does not decide semantic success |
| KPI/flywheel scripts | Read-only scanners plus marker-bounded derived-view updates |
12. Migration sequence
| Phase | Change | Exit evidence |
|---|---|---|
| 0. Blueprint approval | Freeze implementation and agree authority, template, rollout, and failure boundaries | Approved architecture decision record |
| 1. Contract unification | Reconcile V7.2/V8 labels, merge the canonical concept schema/template, add hashes and vault fingerprint | Repo/vault contract parity test |
| 2. Runtime kernel | Add persisted state, command board, typed IPC, dry-run, leases, idempotency, and transaction manifests | Resume/replay and no-op tests |
| 3. Safe ingest | Implement full-source preservation, identity dedupe, anchors, staged commit, and post-commit archive | Fresh/duplicate/race/failure integration tests |
| 4. Cognitive + graph | Replace generic authoring with evidence-bounded semantic compilation; emit graph deltas; serialize shared integration | Claim-anchor and shared-writer tests |
| 5. Real governance | Implement all deterministic touched-set checks, semantic understanding review, and no-regression baseline | Intentional defect tests fail with correct status |
| 6. Retrofit canary | Upgrade a small manifest of previously imported pages using the live template baseline plus V8.1 provenance gates | Page diffs, rollback test, zero new P0/P1 defects |
| 7. Controlled rollout | Expand by domain batch; keep shadow mode and legacy compatibility adapters until two clean cycles | Batch receipts and after-action reviews |
| 8. Consolidation | Retire duplicate orchestrators, align docs, publish SOP mirrors, and remove stale compatibility paths | Entry-point inventory and full contract suite |
13. Acceptance test matrix
The implementation is not production-ready until these cases pass:
Fresh clipping with complete metadata creates one immutable source and one supported concept.
The same clipping rerun is a verified no-op and does not append a duplicate receipt.
Two workers racing on the same canonical URL converge to one source.
Missing author/date remains explicitly unknown; no field is fabricated.
A broken source anchor blocks promotion and leaves the clipping unarchived.
A concept containing an unresolved template token fails Governance.
A changed MOC preimage blocks the graph commit and preserves both candidate and recovery state.
A mid-run restart resumes from the last verified node without replaying completed writes.
A Governance failure can roll back derived writes without deleting source evidence or receipts.
Existing whole-vault debt does not block a clean touched set, but any regression does.
Retrofit of an evidence-poor concept returns
INSUFFICIENT_EVIDENCErather than synthetic Gold-Standard prose.Dashboard refresh produces one current machine-owned snapshot and preserves historical receipts elsewhere.
W5 does not run without an explicit output trigger.
--auditreports actual YAML/link/block/source findings, scope, exit status, and reproducible paths.
14. Recommended approval package
Approve these defaults before implementation:
Architecture: repository control plane + Obsidian canonical data plane + transactional runtime bridge.
Authority: one merged V8.1 schema/template published with matching hashes; the live Gold-Standard template is the retrofit baseline, not an unversioned overwrite source.
Topology: serial spine, semantic fan-out capped at 2 by default, one Integration Owner, independent Governance.
Rollout: dry-run -> shadow -> one-domain retrofit canary -> bounded domain batches.
Safety: archive only after post-commit verification; no fabricated provenance; touched-set zero-regression gate.
After approval, Phase 1 should begin with contract/template reconciliation and acceptance-test scaffolding. Live-vault content migration should not begin until Phases 1–5 are green in an isolated test vault.
15. Temporal and live-vault rollout amendment
The vault owner subsequently expanded the rollout to include maps/, sources/, system/, and wiki/. This does not weaken the transaction boundary:
time-sensitive claims carry
freshness_tier,valid_as_of,last_verified,next_review, andfreshness_status;the same URL with changed content creates a new immutable snapshot linked to prior snapshots;
existing source bodies are never mechanically upgraded in place;
live rollout begins with a read-only inventory, then a system-contract deployment, one new project source/concept, and one evidence-restorable concept retrofit;
map changes remain marker-bounded and single-writer;
domain batches advance only when touched-set P0/P1 findings stay at zero and whole-vault debt does not regress.
The verified baseline and selected canary are recorded in docs/live-vault-v8.1-baseline-2026-08-16.md.
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- tools/worker_flow/utils.py
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- workflows/worker-flows.md
Advantages
- Enforces verification gates to prevent agents from making unverified claims. evidence: README.md
- Provides a durable, structured knowledge base that compounds over time. evidence: README.md
- Supports multi-agent orchestration with typed IPC and isolated write scopes. evidence: README.md
Limitations
- Does not support dynamic or cyclic graphs; graph-engineering is bounded to static DAGs. evidence: README.md
- Requires a specific transactional runtime for full functionality. evidence: AGENTS.md
Security
Risk level: Low risk
This brain runs
Agent instructions that run or fetch something (88)
AGENTS.md:V8.1 defines an explicit **5-Stage Worker Assembly Pipeline** in `workflows/worker-flows.md`, enforced by the canonical transactional runtime `python -m tools.worker_flow.cli`.AGENTS.md:**loop-engineering** — Temporal-depth control through bounded Trigger → Execute → Verify → State loops, durable contracts, hard budgets, and stop/recovery rules.AGENTS.md:`## Success Metrics` — minimum observable result for one successful run.GEMINI.md:V8.1 defines a transactional **5-Stage Worker Assembly Pipeline** (`workflows/worker-flows.md`) enforced by `python -m tools.worker_flow.cli`.skills/agent-teams-command/SKILL.md:<execute>skills/agent-teams-command/SKILL.md:Run regression tests.skills/agent-teams-command/SKILL.md:</execute>skills/agentic-engineering/SKILL.md:Run the adoption gate: use an agent only when ambiguity/adaptation outweigh orchestration, verification, and maintenance cost.skills/agentic-engineering/SKILL.md:<execute>skills/agentic-engineering/SKILL.md:only host code may execute tools or decide continuation.skills/agentic-engineering/SKILL.md:Run a thin loop: understand -> plan -> smallest change -> targeted test -> inspect diff/state -> broader check.skills/agentic-engineering/SKILL.md:</execute>skills/ai-six-sigma-property-os/SKILL.md:bounded agents execute and audit;skills/ai-six-sigma-property-os/SKILL.md:<execute>skills/ai-six-sigma-property-os/SKILL.md:</execute>skills/anthropic-os/SKILL.md:Run Four-C in order: **Context** (truth/history), **Connections** (systems/accounts), **Capabilities** (skills/SOPs/evals), **Cadence** (triggers/reviews).skills/anthropic-os/SKILL.md:<execute>skills/anthropic-os/SKILL.md:Run dual prediction when useful: human and agent predict outcome independently;skills/anthropic-os/SKILL.md:</execute>skills/behavior-design/SKILL.md:<execute>skills/behavior-design/SKILL.md:**H3 SOP:** write `trigger -> action -> evidence -> recovery -> stop` so a missed run has a next move.skills/behavior-design/SKILL.md:</execute>skills/behavior-design/SKILL.md:run a short observation period before optimizing.skills/cognitive-compile/SKILL.md:<execute>skills/cognitive-compile/SKILL.md:</execute>skills/context-manager/SKILL.md:<execute>skills/context-manager/SKILL.md:</execute>skills/creativity-engine/SKILL.md:<execute>skills/creativity-engine/SKILL.md:</execute>skills/daily-okr/SKILL.md:Run one daily objective through seven linked Key Results.skills/daily-okr/SKILL.md:<execute>skills/daily-okr/SKILL.md:**Behavior:** execute one minimum behavior linked to the objective.skills/daily-okr/SKILL.md:</execute>skills/deep-research/SKILL.md:<execute>skills/deep-research/SKILL.md:Run a broad discovery pass;skills/deep-research/SKILL.md:Run a gap-fill pass only for decision-critical unknowns.skills/deep-research/SKILL.md:Run an adversarial pass: strongest counterevidence, alternative mechanism, stale data, selection bias, and missing base rate.skills/deep-research/SKILL.md:</execute>skills/graph-engineering/SKILL.md:Run the admission gate before drawing a graph:skills/graph-engineering/SKILL.md:Probe candidate independence with a small dry run.skills/graph-engineering/SKILL.md:<execute>skills/graph-engineering/SKILL.md:Write the JSON contract and run `scripts/validate_graph_contract.py <contract.json> --strict`.skills/graph-engineering/SKILL.md:node success alone cannot certify graph success.skills/graph-engineering/SKILL.md:</execute>skills/graph-engineering/SKILL.md:run only independent ready nodes.skills/harness-engineering/SKILL.md:Run the trace gate: the harness must be able to show what the agent saw, proposed, called, changed, and verified.skills/harness-engineering/SKILL.md:<execute>skills/harness-engineering/SKILL.md:The host decides whether to execute, continue, checkpoint, or escalate;skills/harness-engineering/SKILL.md:</execute>skills/harness-engineering/SKILL.md:Verify permissions with actual environment boundaries and run an independent end-to-end trace.skills/harness-engineering/SKILL.md:A model emits plausible success text with a tool request: validate and execute the tool in host code, then verify its result;skills/harness-engineering/SKILL.md:A maintenance run finds no eligible change: emit a verified `NO_OP` receipt and zero external outputs rather than creating notification or PR noise.skills/harness-engineering/SKILL.md:The scheduler ran on time but the state store was stale: block mutation, mark the run failed, and recover from the last verified checkpoint.skills/harness-engineering/SKILL.md:A Graph worker completes twice after lease expiry: deduplicate by node/run identity and release successors only from one verified transition.skills/knowledge-ops/SKILL.md:<execute>skills/knowledge-ops/SKILL.md:**Verify:** read after write, check links/source refs, rerun exact-identity search, and run representative retrieval queries.skills/knowledge-ops/SKILL.md:Use idempotency keys for machine append operations: derive the key from operation, canonical source identity, target, and run/batch id;skills/knowledge-ops/SKILL.md:</execute>skills/knowledge-ops/SKILL.md:make no whole-vault claim.skills/loop-engineering/SKILL.md:<skill_contract> <input>A repeatable task with inspectable state, finite budgets, permissions, and an independent verifier.</input> <output>A validated Trigger -> Execute -> Verify -> State contract plus resumable run receipts.</output> <done>The declared metric or stop condition is su …[+161 chars]skills/loop-engineering/SKILL.md:**Goal:** run until a defined end state or cap.skills/loop-engineering/SKILL.md:<execute>skills/loop-engineering/SKILL.md:**Act:** execute one bounded action and capture artifact/diff/receipt.skills/loop-engineering/SKILL.md:</execute>skills/loop-engineering/SKILL.md:A scheduled job fired but produced no run receipt: status is triggered, not completed;skills/project-flow-ops/SKILL.md:<execute>skills/project-flow-ops/SKILL.md:Run the verification named in the definition of done.skills/project-flow-ops/SKILL.md:</execute>skills/session-learn/SKILL.md:<execute>skills/session-learn/SKILL.md:**Pattern** — a reusable Trigger -> Execute -> Verify -> State sequence.skills/session-learn/SKILL.md:</execute>skills/startup-evaluation/SKILL.md:<execute>skills/startup-evaluation/SKILL.md:</execute>skills/verify-before-claim/SKILL.md:<execute>skills/verify-before-claim/SKILL.md:Run the selected check after the final material change.skills/verify-before-claim/SKILL.md:</execute>skills/wiki-ingest/SKILL.md:record the identity query in the run ledger.skills/wiki-ingest/SKILL.md:<execute>skills/wiki-ingest/SKILL.md:Give every machine log entry an idempotency key derived from run/batch, operation, canonical source identity, and target;skills/wiki-ingest/SKILL.md:**Verify:** run targeted link, source-ref, frontmatter, block-ref, empty-file, navigation, and post-write exact-identity checks over touched files.skills/wiki-ingest/SKILL.md:</execute>skills/wiki-lint/SKILL.md:make no content mutation unless separately authorized.skills/wiki-lint/SKILL.md:<execute>skills/wiki-lint/SKILL.md:Run twelve checks and preserve file-level evidence:skills/wiki-lint/SKILL.md:</execute>skills/wiki-lint/SKILL.md:If repair was authorized, run the relevant check again after each bounded repair.skills/workflow-audit/SKILL.md:<execute> Extract a bounded list of distinct work candidates.skills/workflow-audit/SKILL.md:</execute>
Install scripts (2)
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- Low risk: scripts-present (install.sh)
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- Mark393295827/third-brain-v7-skills · commit 5a64514
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