@monoes/monomindcli 1.10.47 → 1.10.55

package/README.md

@@ -1,5 +1,5 @@
 <p align="center">
-  <img src="assets/hero-banner.png" alt="Monomind — AI Agent Orchestration" width="100%" />
+  <img src="assets/hero-banner.png" alt="Monomind — Autonomous Claude Code Orchestration" width="100%" />
 </p>
 
 <p align="center">
@@ -9,10 +9,16 @@
 <h1 align="center">Monomind</h1>
 
 <p align="center">
-  <strong>The orchestration layer that turns Claude Code into an autonomous engineering team.</strong>
+  <strong>Build. Learn. Evolve. Without stopping.</strong>
 </p>
 
 <p align="center">
+  The self-learning orchestration layer that turns Claude Code<br/>
+  into an autonomous, multi-agent engineering team.
+</p>
+
+<p align="center">
+  <a href="https://monoes.github.io/monomind/"><img src="https://img.shields.io/badge/docs-monoes.github.io%2Fmonomind-00D2AA?style=flat-square" alt="Documentation" /></a>
   <a href="https://www.npmjs.com/package/monomind"><img src="https://img.shields.io/npm/v/monomind?color=%234F46E5&label=npm&style=flat-square" alt="npm version" /></a>
   <a href="https://www.npmjs.com/package/monomind"><img src="https://img.shields.io/npm/dm/monomind?color=%2310B981&style=flat-square" alt="downloads" /></a>
   <a href="https://github.com/nokhodian/monomind/stargazers"><img src="https://img.shields.io/github/stars/nokhodian/monomind?color=%23F59E0B&style=flat-square" alt="stars" /></a>
@@ -21,127 +27,132 @@
 </p>
 
 <p align="center">
+  <a href="https://monoes.github.io/monomind/">📖 Full Docs</a> &nbsp;&bull;&nbsp;
   <a href="#quickstart">Quickstart</a> &nbsp;&bull;&nbsp;
   <a href="#what-monomind-does">What It Does</a> &nbsp;&bull;&nbsp;
   <a href="#features">Features</a> &nbsp;&bull;&nbsp;
-  <a href="#agent-catalog">Agent Catalog</a> &nbsp;&bull;&nbsp;
-  <a href="#swarm-orchestration">Swarms</a> &nbsp;&bull;&nbsp;
   <a href="#commands">Commands</a> &nbsp;&bull;&nbsp;
   <a href="#memory--intelligence">Memory</a>
 </p>
 
 ---
 
-## Why Monomind?
+## What is Monomind?
 
-You already use Claude Code. Monomind makes it **10x more powerful**.
+You already use Claude Code. Monomind makes it **autonomous**.
 
-Instead of one AI assistant handling everything, Monomind coordinates **230+ specialized agents** — architects, security auditors, performance engineers, frontend developers, database optimizers — each with domain expertise, working in parallel swarms that review each other's work.
+Type one command. Walk away. Come back to a clean codebase.
 
-**The difference:**
-- **Without Monomind:** You prompt Claude, it does its best across every domain.
-- **With Monomind:** Claude spawns the *right specialist* for each subtask, coordinates them in fault-tolerant swarms, remembers everything across sessions, and learns from every interaction.
+```bash
+/mastermind:autodev --tillend --focus security
+```
+
+Monomind researches your project, selects the highest-impact improvement, builds it with a coordinated agent chain, reviews until zero findings — then repeats. Indefinitely. Until there's nothing left to fix.
 
-> One command. Entire engineering workflows. Zero babysitting.
+> **Without Monomind:** You prompt Claude, wait, review, iterate.  
+> **With Monomind:** You set a direction. Monomind executes.
 
 ---
 
 ## Quickstart
 
 ```bash
-# Install globally
+# Install
 npm install -g monomind
 
-# Initialize in any project
+# Initialize in your project
 cd your-project
 monomind init
 
-# Add MCP server to Claude Code
+# Wire into Claude Code
 claude mcp add monomind npx monomind mcp start
+
+# Start the background daemon
+monomind daemon start
 ```
 
-That's it. Monomind is now active in your Claude Code sessions.
+That's it. Open Claude Code and start orchestrating.
+
+**[→ Full setup guide](https://monoes.github.io/monomind/#getting-started)**
 
 ---
 
-## Monomind Control — Live Dashboard
+## What Monomind Does
 
-<p align="center">
-  <img src="assets/dashboard-control.png" alt="Monomind Control Dashboard" width="100%" />
-</p>
+### Autonomous Build Loop — `/mastermind:autodev`
 
-Real-time visibility into every project, session, agent, memory, route decision, and token spend — all in one terminal-native dashboard.
+The flagship command. Research → Build → Review → Repeat.
 
----
+```
+Phase 1  Research     Parallel scan: git log, file analysis, TODO/FIXME grep,
+                      monograph god nodes, memory search for prior work.
+                      Returns ranked list of 3-5 improvement candidates.
 
-## What Monomind Does
+Phase 2  Selection    Picks by feasibility × blast radius × focus alignment.
+                      Stores selection to memory. Avoids repeating past work.
 
-### From Prompt to Production
+Phase 3  Build        Spawns architect → coder → tester → reviewer chain.
+                      Runs with concrete spec and acceptance criteria.
 
-Monomind turns high-level instructions into coordinated multi-agent execution:
+Phase 4  Review Loop  Code Reviewer + Security Engineer + Reality Checker
+                      run in parallel. Auto-fixes. Repeats up to 5× until clean.
 
+Phase 5  Log          Records completion. Continues to next improvement.
+                      --tillend schedules the next session automatically.
 ```
-You: "Add webhook delivery with retries and dead-letter queue"
 
-Monomind:
-  1. Routes to Software Architect → designs the system
-  2. Spawns backend-dev → implements webhook dispatcher
-  3. Spawns backend-dev → implements retry logic with exponential backoff
-  4. Spawns Database Optimizer → designs dead-letter queue schema
-  5. Spawns tester → writes integration tests
-  6. Spawns Code Reviewer → reviews all changes
-  7. Commits, reports, moves to next task
+```bash
+/mastermind:autodev                     # 1 improvement
+/mastermind:autodev 5                   # 5 improvements in sequence
+/mastermind:autodev --tillend           # run until nothing is left
+/mastermind:autodev --focus security    # bias toward security work
+/mastermind:autodev --focus dx          # bias toward developer experience
+/mastermind:autodev --newfeature 3      # discover & fully deliver 3 brand-new features
+                                        # (build → review → document → stage each one)
 ```
 
-### Autonomous Task Pipelines
-
-```bash
-# Turn a spec into executable tasks, then run them
-/monomind:createtask docs/specs/webhook-system.md
+### From Prompt to Coordinated Execution
 
-# Or let it generate ideas, evaluate, and execute
-/monomind:idea add real-time collaboration to the editor
+```
+You: "Add webhook delivery with retries and a dead-letter queue"
 
-# Pick up tasks and execute them autonomously
-/monomind:do
+Monomind:
+  1. Software Architect   → designs the system
+  2. backend-dev          → implements webhook dispatcher
+  3. backend-dev          → implements retry logic with exponential backoff
+  4. Database Optimizer   → designs dead-letter queue schema
+  5. tester               → writes integration tests
+  6. Code Reviewer        → reviews all changes before merge
 ```
 
+**[→ See all 10 pages of documentation](https://monoes.github.io/monomind/)**
+
 ---
 
 ## Features
 
 ### 230+ Specialized Agents
 
-Not generic "code assistants" — domain experts with targeted system prompts, each optimized for a specific class of work.
+Not generic assistants — domain experts with targeted system prompts, each optimized for a specific class of work.
 
-| Category | Count | Examples |
-|---|---|---|
-| **Engineering** | 23 | Backend Architect, Frontend Developer, Database Optimizer, Embedded Firmware Engineer, SRE |
-| **Marketing** | 27 | SEO Specialist, TikTok Strategist, Content Creator, Growth Hacker, LinkedIn Content Creator |
-| **Specialized** | 27 | Legal Compliance, Finance Tracker, Salesforce Architect, Document Generator, MCP Builder |
-| **Game Dev** | 20 | Unity Architect, Unreal Systems Engineer, Godot Scripter, Roblox Systems Scripter |
-| **Sales** | 8 | Deal Strategist, Sales Engineer, Pipeline Analyst, Outbound Strategist |
-| **Design** | 8 | UI Designer, UX Researcher, Brand Guardian, Visual Storyteller |
-| **Paid Media** | 7 | PPC Strategist, Ad Creative Strategist, Programmatic Buyer, Tracking Specialist |
-| **Support** | 6 | Support Responder, Analytics Reporter, Study Abroad Advisor, Trend Researcher |
-| **Product** | 5 | Product Manager, Sprint Prioritizer, UX Researcher, Experiment Tracker |
-| **Academic** | 5 | Anthropologist, Historian, Psychologist, Geographer, Narratologist |
-| **And more...** | 94+ | Consensus, Swarm Coordination, Neural, SPARC, Architecture, DevOps, Testing |
-
-### Two-Stage LLM Routing
-
-Monomind doesn't guess which agent to use — it **asks an LLM**.
-
-```
-Stage 1: "This task is about SEO optimization" → marketing domain
-Stage 2: "Best fit in marketing: SEO Specialist" → spawns SEO Specialist
-```
+| Category | Examples |
+|---|---|
+| **Engineering** | Backend Architect, Frontend Developer, Database Optimizer, SRE, Embedded Firmware Engineer |
+| **Security** | Security Engineer, Threat Detection Engineer, Blockchain Security Auditor |
+| **Architecture** | Software Architect, System Architect, Salesforce Architect |
+| **Game Dev** | Unity Architect, Unreal Systems Engineer, Godot Scripter, Roblox Systems Scripter |
+| **Marketing** | SEO Specialist, TikTok Strategist, Content Creator, Growth Hacker |
+| **Product** | Product Manager, Sprint Prioritizer, CRO Specialist, Launch Strategist |
+| **AI/ML** | AI Engineer, ML Developer, Data Engineer, Model QA Specialist |
+| **Swarm/Consensus** | Hierarchical Coordinator, Mesh Coordinator, CRDT Synchronizer, Quorum Manager |
 
-Runs in under 2 seconds via Haiku. Falls back to keyword scoring if the API is unavailable.
+### Swarm Topologies
 
-### Swarm Orchestration
+Coordinate multiple agents working in parallel on the same problem:
 
-Coordinate multiple agents working on the same problem:
+<p align="center">
+  <img src="assets/swarm-topology.png" alt="Swarm Topology" width="70%" />
+</p>
 
 | Topology | Best For |
 |---|---|
@@ -149,265 +160,245 @@ Coordinate multiple agents working on the same problem:
 | **Mesh** | Research — all agents share findings peer-to-peer |
 | **Hierarchical-Mesh** | Complex projects — structured delegation with cross-talk |
 | **Adaptive** | Unknown complexity — topology evolves based on task |
+| **Centralized** | Simple tasks — single coordinator, minimal overhead |
+| **Hybrid** | Mixed — star topology with selective mesh connections |
 
-**Consensus protocols:** Raft (leader-based), Byzantine (fault-tolerant), Gossip (eventually consistent), CRDT (conflict-free), Quorum (majority vote).
-
-<p align="center">
-  <img src="assets/swarm-topology.png" alt="Swarm Topology" width="60%" />
-</p>
+**Consensus algorithms:** Raft (leader-based), Byzantine (fault-tolerant up to f < n/3), Gossip (eventually consistent), CRDT (conflict-free), Quorum (majority vote).
 
 ```bash
-# Let Monomind pick the best topology
-/mastermind
-
-# Or configure manually
+/mastermind          # topology picker — recommends the best option for your task
 monomind swarm init --topology hierarchical --agents 8 --strategy specialized
 ```
 
-### Self-Learning Memory
+### Self-Learning Memory — The Memory Palace
 
 Every interaction makes Monomind smarter:
 
-- **AgentDB** — Persistent vector memory with HNSW indexing (150x-12,500x faster search)
-- **Knowledge Graph** — Full dependency mapping of your codebase via Graphify
-- **Session Continuity** — Pick up exactly where you left off across sessions
-- **Neural Patterns** — SONA learning adapts routing and agent behavior over time
-- **Memory Palace** — Visual dashboard for exploring stored knowledge
-
-<p align="center">
-  <img src="assets/memory-palace.png" alt="Memory Palace — Browse memories, sessions, knowledge, and swarms" width="100%" />
-</p>
+| Layer | What It Stores | Tech |
+|---|---|---|
+| **Short-term** | In-flight context (current session) | SQLite + in-memory cache |
+| **Long-term** | Persistent knowledge and patterns | AgentDB + HNSW |
+| **Contextual** | Summarized episode clusters | RAPTOR consolidation worker |
+| **Shared** | Cross-agent state and promotions | PartitionedHNSW |
 
-### 17 Hooks + 12 Background Workers
+- **150x–12,500x faster** semantic search via HNSW indexing
+- **Hybrid backend** — SQLite for structured data + AgentDB for semantic
+- **BM25 + vector** hybrid retrieval — precision + recall
+- **Session continuity** — pick up exactly where you left off
 
-Monomind hooks into every phase of your Claude Code workflow:
+### Knowledge Graph — Monograph
 
-| Hook | What It Does |
-|---|---|
-| `pre-task` | Routes to the best agent before execution starts |
-| `post-task` | Learns from outcomes, updates neural patterns |
-| `pre-edit` | Validates changes against project conventions |
-| `post-edit` | Indexes new code into the knowledge graph |
-| `session-start` | Restores context, preloads relevant memory |
-| `session-end` | Persists learnings, updates metrics |
+30 graph tools that build a full dependency map of your codebase:
 
-**Background workers** handle: optimization, consolidation, prediction, auditing, documentation, refactoring, benchmarking, and test gap analysis — all running autonomously.
+```bash
+monograph_suggest "add webhook retry logic"  # → ranked relevant files
+monograph_query "UserService dependencies"   # → file paths + line numbers
+monograph_god_nodes                          # → high-centrality files
+monograph_impact "auth.ts"                   # → blast radius before changing
+```
 
----
+Queried automatically before every task. No manual invocation needed.
 
-## Agent Catalog
+### Neural Learning — SONA
 
-### Development
+Self-Optimizing Neural Adaptation learns from every task:
 
-| Agent | Specialty |
-|---|---|
-| `coder` | General implementation with TDD |
-| `backend-dev` | APIs, databases, server-side logic |
-| `Frontend Developer` | React, Vue, Angular, CSS systems |
-| `mobile-dev` | React Native, iOS, Android |
-| `Rapid Prototyper` | Fast MVPs and proof-of-concepts |
-| `Solidity Smart Contract Engineer` | EVM, DeFi, gas optimization |
-| `WeChat Mini Program Developer` | WXML/WXSS, WeChat ecosystem |
-| `Embedded Firmware Engineer` | ESP32, ARM Cortex-M, FreeRTOS |
-| `visionOS Spatial Engineer` | SwiftUI volumetric, Liquid Glass |
-
-### Architecture & Quality
-
-| Agent | Specialty |
-|---|---|
-| `Software Architect` | System design, DDD, architectural patterns |
-| `Code Reviewer` | Correctness, security, performance review |
-| `Security Engineer` | Threat modeling, vulnerability assessment |
-| `Database Optimizer` | Schema design, query tuning, indexing |
-| `SRE` | SLOs, error budgets, chaos engineering |
+| Mode | Use Case | Latency |
+|---|---|---|
+| **Real-time** | Interactive sessions | <0.05ms |
+| **Balanced** | General usage | 2-5ms |
+| **Research** | Deep analysis | 50ms |
+| **Edge** | Low-resource | <0.01ms |
+| **Batch** | Offline training | — |
 
-### Marketing & Growth
+- **LoRA fine-tuning** — rank 1–16, domain-specific adaptation
+- **EWC++ memory preservation** — λ 1500–2500, prevents catastrophic forgetting
+- **Reasoning Bank** — 3-tier storage: volatile / pattern / principle
 
-| Agent | Specialty |
-|---|---|
-| `SEO Specialist` | Technical SEO, content optimization |
-| `TikTok Strategist` | Viral content, algorithm optimization |
-| `LinkedIn Content Creator` | Thought leadership, professional content |
-| `Growth Hacker` | Viral loops, conversion funnels |
-| `Content Creator` | Multi-platform editorial calendars |
+### 3-Tier Model Routing
 
-### Game Development
+Monomind routes every task to the cheapest model that can handle it:
 
-| Agent | Specialty |
-|---|---|
-| `Unity Architect` | ScriptableObjects, modular systems |
-| `Unreal Systems Engineer` | C++/Blueprint, Nanite, Lumen |
-| `Godot Gameplay Scripter` | GDScript 2.0, signal architecture |
-| `Roblox Systems Scripter` | Luau, client-server, DataStore |
+| Tier | Handler | Latency | Cost | Use Cases |
+|---|---|---|---|---|
+| **1** | Agent Booster (WASM) | <1ms | $0 | Simple transforms — skip the LLM |
+| **2** | Haiku | ~500ms | $0.0002 | Low-complexity tasks (<30%) |
+| **3** | Sonnet / Opus | 2-5s | $0.003-0.015 | Complex reasoning, architecture |
 
-[See all 230 agents →](.claude/agents/)
+### 29+ Hooks + 12 Background Workers
 
----
+Monomind hooks into every phase of your Claude Code workflow:
 
-## Swarm Orchestration
+| Hook | What It Does |
+|---|---|
+| `pre-task` | Routes to the best agent, suggests topology |
+| `post-task` | Learns from outcomes, updates neural patterns |
+| `pre-edit` | Context suggestions, blast radius check |
+| `post-edit` | Indexes new code into the knowledge graph |
+| `session-start` | Restores context, preloads relevant memory |
+| `session-end` | Persists learnings, updates metrics |
 
-### How Swarms Work
+**Background workers** (12 total): ultralearn, optimize, consolidate, predict, audit, map, preload, deepdive, document, refactor, benchmark, testgaps — all autonomous.
 
-<p align="center">
-  <img src="assets/swarm-inspector.png" alt="Swarm Inspector — topology graph, agent roles, and communication logs" width="100%" />
-</p>
+---
 
-```
-/mastermind "implement authentication system with OAuth2, JWT, and role-based access"
+## Live Dashboard
 
-Monomind recommends: Hierarchical swarm, 6 agents, Raft consensus
+Real-time visibility into every project, session, agent, memory operation, route decision, and token spend.
 
-  Queen Coordinator
-  ├── Software Architect    → designs auth architecture
-  ├── backend-dev           → implements OAuth2 flow
-  ├── backend-dev           → implements JWT + RBAC
-  ├── Security Engineer     → audits for vulnerabilities
-  ├── tester                → writes auth test suite
-  └── Code Reviewer         → reviews everything before merge
+```bash
+monomind daemon start    # starts background workers and session tracking
 ```
 
-### Anti-Drift Protection
-
-Swarms don't just run — they **stay on track**:
-
-- **Raft consensus** — Leader maintains authoritative state, prevents conflicting changes
-- **Frequent checkpoints** — `post-task` hooks validate progress after every step
-- **Shared memory namespace** — All agents in a swarm see the same context
-- **Review cycles** — Code reviewer validates before any task is marked done
+Sessions are fully recorded and replayable — full conversation replay with tool breakdown, agent spawns, and memory operations.
 
 ---
 
 ## Commands
 
-### Slash Commands (Inside Claude Code)
-
-| Command | What It Does |
-|---|---|
-| `/monomind:createtask <spec>` | Ingests a prompt, file, or folder → generates full implementation plan → creates self-contained tasks on monotask |
-| `/monomind:idea <prompt>` | Research swarm generates ideas → PM evaluates → architect decomposes into tasks |
-| `/monomind:do` | Picks up tasks, executes with assigned agents, reviews, fixes bugs, loops |
-| `/mastermind` | Analyzes your task and recommends the optimal swarm topology |
-| `/specialagent <task>` | Two-stage LLM routing to find the perfect specialist agent |
-
-### CLI Commands
+### 53+ CLI Commands
 
 ```bash
-monomind agent spawn --type coder       # Spawn a specific agent
-monomind agent list                      # List running agents
-monomind swarm init                      # Initialize a swarm
-monomind memory search "auth patterns"   # Search vector memory
-monomind hooks route --task "fix bug"    # Route to best agent
-monomind doctor --fix                    # Diagnose and fix issues
-monomind daemon start                    # Start background workers
+monomind init                              # Project initialization wizard
+monomind agent spawn --type coder          # Spawn a specific agent
+monomind swarm init --topology mesh        # Initialize a swarm
+monomind memory search "auth patterns"     # Search vector memory
+monomind hooks route --task "fix bug"      # Route to best agent
+monomind neural train --flash              # enable Flash Attention optimization
+monomind doctor --fix                      # Diagnose and auto-fix issues
+monomind daemon start                      # Start background workers
 ```
 
-41 CLI commands across: agent management, swarm coordination, memory, sessions, hooks, neural training, security, performance profiling, and more.
+**[→ Full CLI reference](https://monoes.github.io/monomind/#commands)**
 
-### Session Inspector
+### 160+ Slash Commands (inside Claude Code)
 
-Every session is recorded and browsable — tool calls, agent spawns, memory operations, and full conversation replay:
-
-<p align="center">
-  <img src="assets/session-detail.png" alt="Session Inspector — full conversation replay with tool breakdown" width="100%" />
-</p>
-
----
+| Command | What It Does |
+|---|---|
+| `/mastermind:autodev` | Autonomous research → build → review loop |
+| `/mastermind:review --tillend` | Keep reviewing and auto-fixing until clean |
+| `/mastermind:build <brief>` | Build a specific feature with an agent chain |
+| `/mastermind:architect` | System architecture design and review |
+| `/mastermind:research` | Deep research with structured output |
+| `/monomind:createtask` | Decompose a spec into executable tasks |
+| `/monomind:idea` | Research → evaluate → create implementation tasks |
+| `/monomind:do` | Execute tasks from the board with parallel agents |
+| `/monomind:review` | Multi-agent iterative review with auto-fix |
+| `/mastermind` | Topology picker — recommends best swarm for your task |
 
-## Memory & Intelligence
+**[→ Full slash command reference](https://monoes.github.io/monomind/#slash)**
 
-### Knowledge Graph (Monograph)
+### `--tillend` — Fully Autonomous Loops
 
-Monomind builds a full dependency graph of your codebase — automatically queried before every task:
+Any command can run autonomously until there's nothing left to do:
 
 ```bash
-# What files are relevant to my task?
-monograph_suggest "add webhook retry logic"
-# → returns ranked list of files with relevance scores
+/mastermind:autodev --tillend --focus security
+# → runs until every security issue is found and fixed
 
-# What depends on UserService?
-monograph_query "UserService dependencies"
-# → returns file paths + line numbers
+/mastermind:review --tillend --auto
+# → reviews and fixes until zero findings
 
-# Find the most connected files in the codebase
-monograph_god_nodes
-# → returns high-centrality internal files (external/test filtered out)
+/mastermind:autodev 5 --tillend --maxruns 20
+# → 5 improvements per session, up to 20 sessions
 ```
 
-All monograph tools are called automatically by hooks and slash commands — you don't need to invoke them manually.
-
-### Vector Memory (AgentDB + HNSW)
-
-Every insight, pattern, and decision is stored in searchable vector memory:
+The loop uses `ScheduleWakeup` to resume across sessions. A staleness guard prevents duplicate runs. Human-in-loop items pause and wait for your response before continuing.
 
-- **150x-12,500x faster** than brute-force search via HNSW indexing
-- **Hybrid backend** — SQLite for structured data, AgentDB for semantic search
-- **Cross-session persistence** — context survives restarts
-
-### Neural Learning (SONA)
-
-Self-Optimizing Neural Adaptation learns from every task:
-
-- Pattern recognition improves agent routing over time
-- Trajectory tracking identifies what works and what doesn't
-- Automatic model adaptation with <0.05ms overhead
+```bash
+# Stop a loop at any time
+touch .monomind/loops/{loop-id}.stop
+```
 
 ---
 
 ## Architecture
 
 ```
-┌─────────────────────────────────────────────────────────────┐
-│                         Monomind                            │
-├──────────────┬──────────────┬──────────────┬───────────────┤
-│   230+ Agents │  Swarm Engine │  Memory Layer │  Intelligence │
-│              │              │              │               │
-│  Specialized │  Hierarchical │  AgentDB     │  SONA Neural  │
-│  agent defs  │  Mesh/Raft   │  HNSW Vector │  Pattern      │
-│  + routing   │  consensus   │  Knowledge   │  Learning     │
-│              │              │  Graph       │               │
-├──────────────┴──────────────┴──────────────┴───────────────┤
-│                     17 Hooks + 12 Workers                   │
-├─────────────────────────────────────────────────────────────┤
-│              MCP Server (stdio/http/websocket)              │
-├─────────────────────────────────────────────────────────────┤
-│                    Claude Code Runtime                      │
-└─────────────────────────────────────────────────────────────┘
+┌─────────────────────────────────────────────────────────────────┐
+│                           Monomind                              │
+├─────────────────┬───────────────┬──────────────┬───────────────┤
+│  230+ Agents    │  Swarm Engine  │ Memory Palace │  Intelligence │
+│                 │               │              │               │
+│  Specialized    │  6 topologies  │ AgentDB HNSW │  SONA Neural  │
+│  agent defs     │  5 consensus   │ Knowledge    │  3-tier       │
+│  + 3-tier       │  algorithms    │ Graph        │  routing      │
+│  routing        │               │ (Monograph)  │  <0.05ms      │
+├─────────────────┴───────────────┴──────────────┴───────────────┤
+│                   29+ Hooks + 12 Background Workers             │
+├─────────────────────────────────────────────────────────────────┤
+│                  MCP Server (stdio / http / WebSocket)          │
+├─────────────────────────────────────────────────────────────────┤
+│                        Claude Code Runtime                      │
+└─────────────────────────────────────────────────────────────────┘
 ```
 
 ### Key Packages
 
+The workspace ships 17 `@monomind/*` packages:
+
 | Package | Purpose |
 |---|---|
-| `@monomind/cli` | 41 commands, agent definitions, slash commands, hooks, MCP server |
-| `@monomind/memory` | AgentDB with HNSW vector search |
-| `@monomind/hooks` | 17 lifecycle hooks + 12 background workers |
-| `@monomind/security` | Input validation, CVE remediation |
-| `@monomind/guidance` | Governance control plane |
+| `@monoes/monomindcli` | CLI entry point — 43 top-level commands, 230+ agent defs, 160+ slash commands, hooks, MCP server |
+| `@monomind/memory` | AgentDB + HNSW vector search, PartitionedHNSW, TierManager, hybrid SQLite backend |
+| `@monomind/hooks` | Lifecycle hook bridge, 12 background workers (ultralearn, optimize, consolidate, predict, audit, map, preload, deepdive, document, refactor, benchmark, testgaps) |
+| `@monomind/neural` | SONA manager, LoRA weight adaptation, EWC++ Fisher updates, 5 operating modes |
+| `@monomind/monograph` | Knowledge graph construction, 30 MCP tools, BM25 + semantic search |
+| `@monomind/graph` | AST-based node/edge extraction, community detection, RAPTOR consolidation |
+| `@monomind/swarm` | UnifiedSwarmCoordinator, 6 topologies, 5 consensus algorithms |
+| `@monomind/security` | Input validation, prompt injection detection, CVE remediation, gVisor sandbox |
+| `@monomind/mcp` | MCP server transport (stdio / http / WebSocket) |
+| `@monomind/routing` | Two-stage LLM + keyword agent routing, confidence scoring |
+| `@monomind/embeddings` | Vector embedding generation and management |
+| `@monomind/performance` | Profiling, benchmarking, latency tracking |
+| `@monomind/plugins` | IPFS/Pinata plugin registry, install/create/list |
+| `@monomind/claims` | Claims-based authorization for agent actions |
+| `@monomind/aidefence` | Adversarial input detection, semantic scanning |
+| `@monomind/guidance` | Governance control plane, workflow templates, budget management |
+| `@monomind/shared` | Shared types, constants, utilities |
 
 ---
 
 ## Performance
 
-| Metric | Result |
-|---|---|
-| Agent routing | <2s (LLM) / <5ms (keyword fallback) |
-| Vector search | 150x-12,500x faster (HNSW) |
-| SONA learning | <0.05ms per adaptation |
-| Session restore | <500ms cold start |
-| Memory reduction | 50-75% vs baseline |
+| Metric | Result | Notes |
+|---|---|---|
+| Vector search speedup | 150x–12,500x via HNSW | Range from Malkov & Yashunin 2018; HNSW implemented in `hnsw-index.ts` |
+| Flash Attention speedup | 2.49x–7.47x | CPU-side attention optimization in `ruvector/flash-attention.ts`; marked in-progress |
+| SONA adaptation target | <0.05ms | Enforced as SLA with runtime warning; marked in-progress |
+| Agent routing (LLM) | <2s | Target; Haiku-based routing |
+| Agent routing (fallback) | <5ms | Keyword scoring path |
+| Session restore | <500ms cold start | Target |
+| Memory reduction | 50–75% vs baseline | Target |
 
 ---
 
 ## Who Uses Monomind?
 
-Monomind is built for teams and individuals who use Claude Code for serious engineering work:
+- **Solo developers** — the power of a full engineering team from one terminal
+- **Startups** — ship features 10x faster with autonomous agent pipelines
+- **Enterprise teams** — coordinate complex multi-module changes without drift
+- **Security teams** — automate audit, CVE triage, and compliance workflows
+- **Game studios** — Unity, Unreal, Godot, and Roblox specialists on demand
+- **Marketing teams** — content operations with 27 domain-specific marketing agents
+
+---
+
+## Documentation
+
+**Full interactive documentation:** **[monoes.github.io/monomind](https://monoes.github.io/monomind/)**
 
-- **Solo developers** who want the power of a full engineering team
-- **Startups** shipping features faster with autonomous agent pipelines
-- **Enterprise teams** coordinating complex multi-module changes
-- **Game studios** using specialized Unity/Unreal/Godot agents
-- **Marketing teams** running content operations with domain-specific agents
-- **Security teams** automating audit and compliance workflows
+| Section | Description |
+|---|---|
+| [Getting Started](https://monoes.github.io/monomind/#getting-started) | Install, configure MCP, run first autonomous loop |
+| [Architecture](https://monoes.github.io/monomind/#architecture) | Package map, agent hierarchy, data flows |
+| [Memory & Knowledge](https://monoes.github.io/monomind/#memory) | Memory Palace tiers, AgentDB, Monograph graph tools |
+| [Hooks & Workers](https://monoes.github.io/monomind/#hooks) | 29+ hook events, 12 workers, settings.json wiring |
+| [Swarm Coordination](https://monoes.github.io/monomind/#swarm) | 6 topologies, 5 consensus algorithms, agent hierarchy |
+| [Neural Learning](https://monoes.github.io/monomind/#neural) | SONA modes, LoRA, EWC++, Reasoning Bank |
+| [CLI Commands](https://monoes.github.io/monomind/#commands) | All 53+ commands with flags and examples |
+| [Slash Commands](https://monoes.github.io/monomind/#slash) | All 160+ slash commands across 22 categories |
+| [Mastermind](https://monoes.github.io/monomind/#mastermind) | autodev loop, --tillend mechanics, Brain protocol |
 
 ---
 
@@ -426,7 +417,7 @@ See [CONTRIBUTING.md](CONTRIBUTING.md) for guidelines.
 
 ## License
 
-MIT License — See [LICENSE](LICENSE) for details.
+MIT — See [LICENSE](LICENSE) for details.
 
 ---
 
@@ -435,7 +426,83 @@ MIT License — See [LICENSE](LICENSE) for details.
 </p>
 
 <p align="center">
+  <a href="https://monoes.github.io/monomind/">📖 Docs</a> &nbsp;&bull;&nbsp;
   <a href="https://www.npmjs.com/package/monomind">npm</a> &nbsp;&bull;&nbsp;
   <a href="https://github.com/nokhodian/monomind">GitHub</a> &nbsp;&bull;&nbsp;
   <a href="https://github.com/nokhodian/monomind/issues">Issues</a>
 </p>
+
+---
+
+## Acknowledgements
+
+Monomind builds on ideas, patterns, and research from the following projects:
+
+| Repository | Used for |
+|---|---|
+| [ruvnet/ruflo](https://github.com/ruvnet/ruflo) | Original skeleton that provided the foundational hooks system, swarm coordination, and SPARC agent methodology. |
+| [msitarzewski/agency-agents](https://github.com/msitarzewski/agency-agents) | Informs the multi-agent instruction file layout and specialist agent catalog design. |
+| [microsoft/autogen](https://github.com/microsoft/autogen) | Provides the human-in-the-loop interrupt gate pattern and auto-retry tool logic in `@monomind/hooks`. |
+| [crewAIInc/crewAI](https://github.com/crewAIInc/crewAI) | Provides the multi-tier memory architecture (`ShortTermMemory`, `EntityMemory`, `ContextualMemory`, `LongTermMemory`) in `@monomind/memory`. |
+| [langchain-ai/langgraph](https://github.com/langchain-ai/langgraph) | Provides the `SwarmCheckpointer` graph-checkpoint-and-resume pattern and fan-out/fan-in workflow DSL. |
+| [All-Hands-AI/OpenHands](https://github.com/All-Hands-AI/OpenHands) | Provides the per-agent `SandboxConfig` sandboxing model and EventStream session replay architecture. |
+| [agno-agi/agno](https://github.com/agno-agi/agno) | Provides the `AgentMemory` knowledge-base architecture and team-level agent coordination class. |
+| [huggingface/smolagents](https://github.com/huggingface/smolagents) | Provides the explicit planning-before-execution step in `LATSPlanner` and the `PlanStore` persistence layer. |
+| [pydantic/pydantic-ai](https://github.com/pydantic/pydantic-ai) | Provides typed agent I/O schema patterns and auto-retry-on-validation-failure used throughout agent contracts. |
+| [BerriAI/atomic-agents](https://github.com/KRunchPL/atomic-agents) | Provides `BaseIOSchema` typed agent contracts and `SystemPromptContextProvider` composition patterns. |
+| [stanfordnlp/dspy](https://github.com/stanfordnlp/dspy) | Provides the `BootstrapFewShot`/MIPRO prompt optimization pipeline and Bayesian exploration in `PromptOptimizer.optimize()`. |
+| [aurelio-labs/semantic-router](https://github.com/aurelio-labs/semantic-router) | Provides the utterance-based `RouteLayer` that replaced static routing codes in the agent dispatcher. |
+| [langfuse/langfuse](https://github.com/langfuse/langfuse) | Provides the trace/span/generation observability hierarchy and prompt version management in `@monomind/hooks`. |
+| [karpathy/autoresearch](https://github.com/karpathy/autoresearch) | Provides the BASELINE/KEEP/DISCARD experiment loop protocol and time-budget pattern used in `@monomind/graph`. |
+| [safishamsi/graphify](https://github.com/safishamsi/graphify) | Provides the AST-based knowledge graph construction, Louvain community detection, and `GRAPH_REPORT.md` format that form `@monomind/graph`. |
+| [google/gvisor](https://gvisor.dev) | Provides the `runsc` OCI runtime that reduces container syscall surface to ~50 interceptions, wired into `SandboxConfig.use_gvisor`. |
+| [Indirect Injection research](https://arxiv.org/abs/2302.12173) | `validateExternalContent()` in `@monomind/security` applies the injection pattern detection to all externally-sourced tool content. |
+| [FOREVER Forgetting Curve](https://arxiv.org/html/2601.03938v1) | `LearningBridge.decayConfidences()` implements the importance-weighted exponential forgetting curve (`importanceScore × e^(−λt)`). |
+| [Awesome RLVR](https://github.com/opendilab/awesome-RLVR) | `hooksModelOutcome` `verifier_type` field (tsc/vitest/eslint/llm_judge) provides grounded binary reward signals. |
+| [ERL — Experiential Reflective Learning](https://arxiv.org/abs/2603.24639) | Structured `{condition, action, confidence}` heuristics extracted at `hooks_post-task` and injected as ranked hints into `hooks_pre-task`. |
+| [A-MEM — Agentic Memory](https://arxiv.org/abs/2502.12110) | Auto-links top-3 HNSW neighbors via `bridgeRecordCausalEdge` after every `bridgeStoreEntry` call in `@monomind/memory`. |
+| [Collaborative Memory Promotion](https://arxiv.org/abs/2505.18279) | `checkAndPromoteEntry()` in `SQLiteBackend` auto-promotes entries from `private` to `team` scope after 3+ distinct agent reads within 24 h. |
+| [Zep / Graphiti — Bi-Temporal Knowledge Graph](https://arxiv.org/abs/2501.13956) | `MemoryEntry.eventAt` separates event time T from ingestion time T' for bi-temporal filtering without index rebuilds. |
+| [HippoRAG 2 — PPR Graph Retrieval](https://arxiv.org/abs/2405.14831) | `MemoryGraph.pprRerank()` expands HNSW candidates one hop via `MemoryEntry.references` edges. |
+| [RAPTOR — Recursive Abstractive Tree Indexing](https://arxiv.org/abs/2401.18059) | `RaptorWorker` clusters episodic entries, summarizes each cluster, and stores results as `contextual`-tier entries. |
+| [Multi-Agent Reflexion (MAR)](https://arxiv.org/html/2512.20845) | `hooks_post-task` returns `marReflection` on task failure via a Diagnoser/Critic/Aggregator reflection loop. |
+| [TextGrad](https://arxiv.org/abs/2406.07496) | Stores `textual_gradient` critiques to the `gradients` memory namespace for injection into the next prompt on failure. |
+| [CP-WBFT](https://arxiv.org/abs/2511.10400) | `weightedTally()` scales each agent's vote by confidence in `@monomind/hooks` hive-mind consensus (AAAI 2026). |
+| [GraphRAG](https://arxiv.org/abs/2404.16130) | `MemoryGraph.getCommunitySummaries()` prepends community-level descriptors to semantic search results. |
+| [MemPalace](https://github.com/nokhodian/mempalace) | Foundation of the memory palace system with BM25 verbatim retrieval, Wing/Room/Hall hierarchy, and temporal knowledge graph. |
+| [vercel-labs/agent-browser](https://github.com/vercel-labs/agent-browser) | Native Rust CDP client architecture that powers `npx monomind browse`. |
+| [AgentSeal/codeburn](https://github.com/AgentSeal/codeburn) | Token cost attribution model tracking spend by task, tool, model, and project used in `features/codeburn.md`. |
+| [fallow-rs/fallow](https://github.com/fallow-rs/fallow) | Dead code detection patterns used in `monograph-tools.ts` via `deadCodePct()` and `unusedDepsPct()`. |
+| [pbakaus/impeccable](https://github.com/pbakaus/impeccable) | 27-pattern HTML/CSS anti-pattern detection CLI integrated via `npx impeccable detect` in the `monodesign` skill. |
+| [hardikpandya/stop-slop](https://github.com/hardikpandya/stop-slop) | Directly integrated as the `stop-slop` skill for detecting and removing AI writing tells from prose. |
+| [obra/superpowers](https://github.com/obra/superpowers) | Forms the complete `superpowers` skill layer providing brainstorming, TDD, systematic debugging, and finishing workflows. |
+| [Lum1104/Understand-Anything](https://github.com/Lum1104/Understand-Anything) | Informs `monomind:understand` semantic enrichment and `@monomind/graph` knowledge graph traversal architecture. |
+| [nextlevelbuilder/ui-ux-pro-max-skill](https://github.com/nextlevelbuilder/ui-ux-pro-max-skill) | Provides the design system methodology and component-first craft approach that forms the `monodesign` skill. |
+| [paperclipai/paperclip](https://github.com/paperclipai/paperclip) | Autonomous business workflow patterns that informed `mastermind:ops`, `mastermind:finance`, and `mastermind:sales`. |
+
+---
+
+## Research Acknowledgements
+
+Monomind implements techniques from peer-reviewed research across distributed systems, machine learning, and software engineering:
+
+| Technique | Paper | Applied In |
+|---|---|---|
+| HNSW approximate nearest neighbor | Malkov & Yashunin, 2018 — *Efficient and Robust ANN* | `HNSWIndex` and `HnswLite` in `@monomind/memory` vector search |
+| Flash Attention | Dao et al., 2022 — *Fast and Memory-Efficient Exact Attention* | Session context compression in `@monomind/hooks` |
+| LoRA fine-tuning | Hu et al., 2021 — *Low-Rank Adaptation of Large Language Models* | Pattern distillation DISTILL step in `RvfLearningStore` |
+| EWC (Elastic Weight Consolidation) | Kirkpatrick et al., 2017 — *Overcoming Catastrophic Forgetting* | CONSOLIDATE step session persistence in `@monomind/memory` |
+| Byzantine fault tolerance | Castro & Liskov, 1999 — *Practical Byzantine Fault Tolerance* | `weightedTally()` in CP-WBFT hive-mind consensus |
+| Raft consensus | Ongaro & Ousterhout, 2014 — *In Search of an Understandable Consensus Algorithm* | `RaftManager` swarm coordinator state machine |
+| CRDT data structures | Shapiro et al., 2011 — *Conflict-Free Replicated Data Types* | `CrdtSynchronizer` for eventually consistent agent memory |
+| Gossip protocols | Demers et al., 1987 — *Epidemic Algorithms for Replicated Database Maintenance* | `GossipCoordinator` cross-agent state propagation |
+| Mixture of Experts | Shazeer et al., 2017 — *Outrageously Large Neural Networks* | MoE semantic router for agent task routing |
+| Hyperbolic embeddings | Nickel & Kiela, 2017 — *Poincaré Embeddings for Learning Hierarchical Representations* | Code graph hierarchical vector space in `@monomind/memory` |
+| Int8 quantization | Dettmers et al., 2022 — *LLM.int8(): 8-bit Matrix Multiplication for Transformers* | Weight compression for neural pattern memory footprint reduction |
+| GOAP planning | Orkin, 2004 — *Applying Goal-Oriented Action Planning to Games* | `code-goal-planner` and `sublinear-goal-planner` agents |
+| Self-play RL | Silver et al., 2017 — *Mastering Chess and Shogi by Self-Play* | Pattern reinforcement loop in ReasoningBank |
+| Hierarchical memory | Tulving, 1972 — *Episodic and Semantic Memory* | AgentDB episodic/semantic namespace split in `@monomind/memory` |
+| PageRank influence | Page et al., 1998 — *The PageRank Citation Ranking* | `pagerank-analyzer` agent and `MemoryGraph` graph centrality scoring |
+| Hindsight Experience Replay | Andrychowicz et al., 2017 — *HER: Hindsight Experience Replay* | HER policy learner in the RL router |
+| SPARC methodology | Agile/TDD literature | `sparc-coord`, `sparc-coder`, `specification`, `pseudocode`, and `refinement` agents |
+| Sublinear algorithms | Various — approximation theory | `sublinear-goal-planner`, `matrix-optimizer`, and `trading-predictor` agents |