Cognitive OS v3.0 — Universal AI Agent Operating System
Cognitive OS v3.0
The future is not predicted. It is compiled.
Cognitive OS is a universal cognitive operating system specification for AI coding agents. It defines a production-grade, 16-section cognitive architecture that governs how LLM-powered agents think, plan, verify, and execute across real-world systems.
A single master specification (AGENTS.md, 699 lines) auto-adapts to 5 AI agent harnesses through thin adapters: Claude Code, Cursor, Codex CLI, Gemini CLI, and Factory Droid.
What's Included
Cognitive Architecture (16 Sections)
- 10-layer cognitive stack (intake triage T0-T4, reasoning modes, context budgeting, diff-aware editing, tool blindness prevention, semantic search, generated file awareness, phased execution, rollback planning, dependency discipline)
- Multi-model orchestration with task complexity routing matrix and ensemble verification
- 4-layer agentic memory stack (working, episodic, semantic, procedural)
- Autonomous verification system with mandatory 7-step verification chain and self-healing pipeline
- Swarm coordination protocol with sub-agent swarming, worktree isolation, and DAG execution
- Adversarial security framework with prompt injection defense and circuit breakers
- Economic intelligence with token cost tracking and ROI-aware task routing
- Self-improvement pipeline with continuous learning loop and instinct evolution
- Real-world actuation protocols for browser automation, deployments, and trading systems
- Observability and tracing with quality gates and eval-driven development
- Code quality standards for TypeScript/React, Python, Rust, and Solidity/DeFi
- SPARC methodology integration (Specification, Pseudocode, Architecture, Refinement, Completion)
Multi-Harness Adapters
| Harness | File | Purpose |
|---|---|---|
| Factory Droid | .factory/AGENTS.md |
MCP servers, sub-agent strategy, custom droids |
| Claude Code | CLAUDE.md |
ECC agent registry, gstack, model routing |
| Cursor | .cursorrules |
Compact subset for code completion |
| Codex CLI | CODEX.md |
OpenAI-optimized directives |
| Gemini CLI | GEMINI.md |
Google-optimized extensions |
Infrastructure
- CI/CD pipeline (7 jobs: lint, format, test, link-check, tech-debt-scan, flaky-test-detection, docs-validation)
- CodeQL security analysis (runs on push, PR, and weekly schedule)
- Stale issue/PR bot (30-day stale, 7-day close, security exemptions)
- Automated release workflow
- 110 vitest tests across 5 test suites
- Pre-commit hooks (husky + lint-staged + markdownlint + prettier)
- Branch protection (enforce admins, no force push)
- Secret scanning with push protection
- Dependabot weekly updates
- Devcontainer configuration
- Architecture diagrams (Mermaid) and operational runbooks
Quick Start
git clone https://github.com/aegntic/cognitive-os.git
cd cognitive-os
npm install
npm testCopy AGENTS.md and your harness adapter into any project. Your AI agent auto-detects and loads the spec at session start.
Documentation
- Landing Page: https://aegntic.github.io/cognitive-os/
- Architecture Diagrams: docs/architecture.md
- Runbooks: docs/runbooks.md
- Contributing: CONTRIBUTING.md
- Security Policy: .github/SECURITY.md
- Changelog: CHANGELOG.md
Links
- GitHub Pages: https://aegntic.github.io/cognitive-os/
- Discussions: https://github.com/aegntic/cognitive-os/discussions