chore(repo): clean root and move docs

- Move docs to docs/; keep areas for prompts only
- Relocate Makefile to scripts/Makefile; update docs to use it
- Move ci.Dockerfile to docker/ci.Dockerfile; update compose
- Move commitlint config to .config and update hook
- Remove root AGENTS.md (use area AGENTS.md)

.config/commitlint.config.cjs

@@ -1,4 +1,4 @@
-module.exports = {
+export default {
   extends: ['@commitlint/config-conventional'],
 };
 

AGENTS.md

@@ -1,7 +0,0 @@
-Agent Guidance (Repo Base)
-
-- Use area prompt packs generated under `dist/prompts/`:
-  - CTO: [dist/prompts/cto.md](dist/prompts/cto.md)
-  - COO: [dist/prompts/coo.md](dist/prompts/coo.md)
-- To rebuild packs locally: `make prompts` (runs inside CI container).
-- Keep prompts modular and concise; favor COMMON modules and minimal area deltas.

COMMON/README.md

@@ -1,13 +0,0 @@
-COMMON
-
-Purpose
-- Foundational, shared practices usable across projects.
-- Opinionated but adaptable; intended as a base layer.
-
-Contents (initial)
-- Git workflow: [COMMON/git-workflow.md](git-workflow.md)
-- CI/bootstrap parity: [COMMON/bootstrap-cicd.md](bootstrap-cicd.md)
-- Documentation style: [COMMON/docs-style.md](docs-style.md)
-
-Notes
-- Keep content generic and reusable; project-specific overrides should live in the target repo.

README.md

@@ -1,3 +1,23 @@
 # LLMScaffolding
 
-TSYS Group LLM Scaffolding. We heavily utilize AI to produce software and other deliverables.
+Base scaffolding for AI‑assisted work. Clean root; docs in `docs/`; areas for prompts.
+
+Layout
+- docs/ — human‑readable docs (getting started, workflow, CI, style)
+- COMMON/ CTO/ COO/ CCO/ — questions, proposals, and prompt modules only
+- scripts/ — Makefile and helper scripts
+- docker/ — CI compose and Dockerfile
+- dist/prompts/ — generated prompt packs (cto.md, coo.md)
+- proposals/, questions/ — repository planning artifacts
+
+Quickstart
+- Install hooks: `make -f scripts/Makefile hooks-setup`
+- Run checks: `make -f scripts/Makefile check`
+- Build prompt packs: `make -f scripts/Makefile prompts`
+
+Docs
+- Git workflow: [docs/git-workflow.md](docs/git-workflow.md)
+- Local CI parity: [docs/bootstrap-cicd.md](docs/bootstrap-cicd.md)
+- Documentation style: [docs/docs-style.md](docs/docs-style.md)
+- Operational notes: [docs/RESUME.md](docs/RESUME.md), [docs/TODO.md](docs/TODO.md)
+- History: [docs/history/BOOTSTRAP.md](docs/history/BOOTSTRAP.md)

docker/ci.Dockerfile

@@ -38,3 +38,4 @@ RUN npm --location=global install \
 WORKDIR /workspace
 ENTRYPOINT ["bash","-lc"]
 CMD ["bash"]
+

docker/ci.compose.yml

@@ -2,7 +2,7 @@ services:
   ci:
     build:
       context: ..
-      dockerfile: ci.Dockerfile
+      dockerfile: docker/ci.Dockerfile
     working_dir: /workspace
     volumes:
       - "../:/workspace:Z"
@@ -10,4 +10,3 @@ services:
       - IN_CI_CONTAINER=1
     entrypoint: ["bash","-lc"]
     command: ["bash"]
-

docs/README.md

@@ -0,0 +1,15 @@
+Repository Docs
+
+Purpose
+- Centralize human‑readable documentation. Area folders (COMMON/CTO/COO/CCO) are reserved for questions, proposals, and prompt modules.
+
+Key Documents
+- Git workflow: [git-workflow.md](git-workflow.md)
+- Local CI parity: [bootstrap-cicd.md](bootstrap-cicd.md)
+- Documentation style: [docs-style.md](docs-style.md)
+- Operational notes: [RESUME.md](RESUME.md), [TODO.md](TODO.md)
+- History: [history/BOOTSTRAP.md](history/BOOTSTRAP.md)
+
+Usage
+- Make targets moved to `scripts/Makefile`. Use `make -f scripts/Makefile <target>`.
+

docs/RESUME.md

@@ -16,12 +16,12 @@ Branches on remote
 - Start Docker Desktop/daemon as needed
 
 3) Install hooks locally
-- make hooks-setup
+- make -f scripts/Makefile hooks-setup
 
 4) Run local checks (Docker-only)
-- git switch bootstrap && make quick && make build
+- git switch bootstrap && make -f scripts/Makefile quick && make -f scripts/Makefile build
-- git switch bootstrap-cicd && make quick && make build
+- git switch bootstrap-cicd && make -f scripts/Makefile quick && make -f scripts/Makefile build
-- Optional full pass: make check
+- Optional full pass: make -f scripts/Makefile check
 
 5) Open PRs (when branches are green locally)
 - bootstrap → integration: https://git.knownelement.com/KNEL/LLMScaffolding/pulls/new/bootstrap
@@ -41,12 +41,13 @@ Branches on remote
   - git branch -f release main && git push -f origin release
 
 8) Docs & parity
-- Git workflow: [COMMON/git-workflow.md](COMMON/git-workflow.md)
+- Git workflow: [docs/git-workflow.md](git-workflow.md)
-- Local CI parity: [COMMON/bootstrap-cicd.md](COMMON/bootstrap-cicd.md)
+- Local CI parity: [docs/bootstrap-cicd.md](bootstrap-cicd.md)
 
 9) Defer CI enablement for two weeks
-- Track in [TODO.md](TODO.md): Revisit enabling runners and protected checks on 2025-09-24
+- Track in [docs/TODO.md](TODO.md): Revisit enabling runners and protected checks on 2025-09-24
 
 10) Next tasks
 - Answer any outstanding questions in questions/*
 - On approval, implement further proposals and update instructions/*
+

docs/TODO.md

@@ -3,7 +3,7 @@ TODO
 - Git workflow
   - [x] Questions gathered and answered
   - [x] Proposal iteration 2 drafted
-- [x] Finalize approval and capture in [COMMON/git-workflow.md](COMMON/git-workflow.md)
+  - [x] Finalize approval and capture in [docs/git-workflow.md](git-workflow.md)
 
 - Branches
   - [x] Create integration, release, bootstrap from main
@@ -12,9 +12,9 @@ TODO
 
 - CI/CD bootstrap
   - [x] Create branch bootstrap-cicd from main
-- [x] Add questions at [questions/bootstrap-cicd.md](questions/bootstrap-cicd.md)
+  - [x] Add questions at [questions/bootstrap-cicd.md](../questions/bootstrap-cicd.md)
   - [x] Draft proposal based on answers
-  - [x] Implement parity tooling: scripts/ci, ci.Dockerfile, docker/ci.compose.yml
+  - [x] Implement parity tooling: scripts/ci, docker/ci.Dockerfile, docker/ci.compose.yml
   - [x] Add .gitea/workflows: ci.yml, release.yml, nightly.yml
   - [x] Add commitlint.config.cjs, Makefile
   - [ ] Optional: add .pre-commit-config.yaml (defer for now)
@@ -31,4 +31,5 @@ TODO
   - [ ] Optional: fast-forward release branch to latest tag
 
 - Docs
-- [ ] Write [docs/engineering/git-workflow.md](docs/engineering/git-workflow.md) with diagrams and examples
+  - [ ] Write [docs/engineering/git-workflow.md](engineering/git-workflow.md) with diagrams and examples
+

docs/bootstrap-cicd.md

@@ -4,15 +4,15 @@ Purpose
 - Provide a portable CI toolchain via a Dockerized image and compose file so that format/lint/build checks run identically locally and in CI.
 
 Components
-- `ci.Dockerfile` – builds the CI image with shellcheck, shfmt, hadolint, actionlint, yamllint, Node tools.
+- `docker/ci.Dockerfile` – builds the CI image with shellcheck, shfmt, hadolint, actionlint, yamllint, Node tools.
 - `docker/ci.compose.yml` – runs the CI container mounting the repo at `/workspace`.
 - `scripts/ci` – wrapper for phases: `format`, `lint`, `build`, `test`, `security`, `all`.
 - Git hooks – `.githooks/*` installed via `scripts/setup-hooks`.
 
 Usage
-- Install hooks: `make hooks-setup`
+- Install hooks: `make -f scripts/Makefile hooks-setup`
-- Quick checks: `make quick` (format + lint)
+- Quick checks: `make -f scripts/Makefile quick` (format + lint)
-- Full pass: `make check` (all phases)
+- Full pass: `make -f scripts/Makefile check` (all phases)
 
 Notes
 - Pre-commit hook runs format/lint and commit message checks.

docs/docs-style.md

@@ -1,6 +1,6 @@
 Documentation Style Guide
 
-- When referencing another Markdown file in this repo, use a relative link so it is clickable in Gitea. Example: [COMMON/git-workflow.md](COMMON/git-workflow.md).
+- When referencing another Markdown file in this repo, use a relative link so it is clickable in Gitea. Example: [docs/git-workflow.md](git-workflow.md).
 - Keep titles concise and descriptive; use sentence case unless a proper noun.
 - Prefer short bullets (one point per line). Merge related points.
 - Use backticks for commands, file paths, env vars, and code identifiers.

scripts/Makefile

@@ -1,6 +1,6 @@
 SHELL := /usr/bin/env bash
 
-.PHONY: all check quick format lint build test security ci-image hooks-setup
+.PHONY: all check quick format lint build test security ci-image hooks-setup prompts prompts-check
 
 all: check
 
@@ -26,14 +26,14 @@ security:
 	./scripts/ci security
 
 ci-image:
-	docker build -f ci.Dockerfile -t local/ci:latest .
+	docker build -f docker/ci.Dockerfile -t local/ci:latest .
 
 hooks-setup:
 	./scripts/setup-hooks
 
-.PHONY: prompts prompts-check
 prompts:
 	./scripts/prompts all
 
 prompts-check:
 	./scripts/prompts lint
+

scripts/commitlint-hook

@@ -6,5 +6,4 @@ MSG_FILE="${1:-.git/COMMIT_EDITMSG}"
 # Run commitlint inside the CI container against the commit message file
 docker compose -f docker/ci.compose.yml run --rm \
   -e IN_CI_CONTAINER=1 \
-  ci bash -lc "commitlint --edit ${MSG_FILE}"
+  ci bash -lc "commitlint --config .config/commitlint.config.cjs --edit ${MSG_FILE}"
-