refactor: remove Makefile, restructure as knowledge-first framework

The primary value is the knowledge layer (markdown files that any agent
reads — Crush, OpenWebUI, Hermes, Conduit on iPhone). CLI tooling
(scripts, git hooks) is optional, for projects that use git/docker.

Changes:
- Remove Makefile entirely. All commands are now direct script invocations
  (bash scripts/check-rules.sh, bash scripts/setup-hooks.sh, etc.)
- Add scripts/test.sh stub (replaces make test)
- check-rules.sh: test-suite check now calls scripts/test.sh, not make test
- Rewrite README as three-layer architecture: knowledge → git hooks → docker
- Update all docs (AGENTS.md, BASELINE-PROMPT.md, ADOPTING.md, PATTERNS.md,
  STATUS.md) to remove every make reference

The framework now works for:
- CLI/harness users (git hooks + scripts + AGENTS.md)
- Non-CLI users (BASELINE-PROMPT.md loaded into any agent's system prompt)

💘 Generated with Crush

Assisted-by: Crush via Crush <crush@charm.land>

scripts/check-rules.sh

@@ -107,7 +107,7 @@ fi
 # 3. Required-files manifest — the files every project using this template owns.
 # ----------------------------------------------------------------------------
 $RULE_VERBOSE && log_step "Required files"
-REQUIRED_FILES="AGENTS.md STATUS.md questions-v1.md .env.example Makefile scripts/check-rules.sh scripts/setup-hooks.sh"
+REQUIRED_FILES="AGENTS.md STATUS.md questions-v1.md .env.example scripts/check-rules.sh scripts/setup-hooks.sh"
 REQUIRED_FILES="$REQUIRED_FILES ${PROJECT_REQUIRED_FILES:-}"
 for f in $REQUIRED_FILES; do
     if [ -f "$f" ]; then check "$f exists" "pass"; else check "$f MISSING" "fail"; fi
@@ -231,14 +231,14 @@ if git rev-parse --is-inside-work-tree >/dev/null 2>&1; then
 fi
 
 # ----------------------------------------------------------------------------
-# 10. (slow, skipped in --fast) Project test suite via `make test` if present.
+# 10. (slow, skipped in --fast) Project test suite via scripts/test.sh.
 # ----------------------------------------------------------------------------
-if [ "$RULE_FAST" = false ] && [ -f Makefile ] && grep -qE '^test:' Makefile; then
-    $RULE_VERBOSE && log_step "Test suite (make test)"
-    if make test >/dev/null 2>&1; then
-        check "make test passes" "pass"
+if [ "$RULE_FAST" = false ] && [ -x scripts/test.sh ]; then
+    $RULE_VERBOSE && log_step "Test suite (scripts/test.sh)"
+    if bash scripts/test.sh >/dev/null 2>&1; then
+        check "scripts/test.sh passes" "pass"
     else
-        check "make test FAILS" "fail"
+        check "scripts/test.sh FAILS" "fail"
     fi
 fi