docs: correct the apm-only change after a five-agent review

A five-agent review of 718c79a and d2480b8 found no skill, agent or hook
regressions (39 skills before and after) and confirmed both hook removals
are genuinely moot -- verified against the tree, not taken on the commit's
word. It did find one functional regression (fixed separately) and this
documentation drift.

Counting errors, all from a git pathspec `*` crossing `/`:
  - 17 .bats files shipped to consumers is really 10; 17 counted tracked
    paths merely containing /tests/, one of them a template asset
  - "roughly 88s off every push" is ~92.4s; 88 omitted validate-plugins
  - "roughly 70% of each plugin remains live" holds only for kyberforge;
    the real spread is 44.3% (bin) to 70.6%, now a table
  - the pre-push enforcement row was half-corrected: 33 entries stood
    unstruck (now 27) and 14 -> 11 switched counting basis mid-sentence
  - the root .claude-plugin/plugin.json was described as "kept"; it has
    never been tracked

gates.md said "Ten hooks" above a nine-row table (11 was decremented for
one removal, not two), and "both need the claude CLI" for one remaining
validator. Its pretty-format-json exclude rationale claimed six
alternations expanding to sixteen files in a passage headed "Mind which
number you are quoting" -- four alternations, two live files; the two
dead ones are dropped from the pattern. check-useless-excludes could not
catch this: it only flags an exclude matching nothing at all.

ADR-0024 cited ADR-0006 for a patch-bump rule it does not contain and
which ADR-0015 explicitly retired; stated apm's marketplace probe order
backwards (.claude-plugin/ is the last candidate, not the first, so the
earlier .github/plugin/ deletion only demoted resolution); undercounted
apm's skill-deploying targets as seven when there are fifteen; and never
recorded that validate-plugins was removed. The symlink hedge is resolved:
apm_cli/security/gate.py's ignore_non_content() drops symlinks silently on
deploy while apm_modules/ materialization dereferences them, so content
survives that far and vanishes at install. Accepted with no replacement
guard, per decision -- kyberforge/docs/hooks.md previously asserted a
guard that had been deleted with its script.

Four plugin READMEs still advertised `claude plugin install`; ADRs 0001,
0006, 0013, 0014, 0015 and 0019 described deleted machinery in the present
tense, 0019 most consequentially as the live justification for the
SessionStart hook's .apm/ path. CONTEXT.md's "apm package" entry forbade
"plugin" while using it in its own body, and "Output profile" lost the
antecedent for "one catalogue serves both".

run-tests.sh gains the .claude/skills/ exclusion run-bats.sh already had.
Latent today -- no test-*.sh lives under any .apm/skills/*/tests/ -- but
apm now deploys those directories, so one would be discovered twice.

Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01YR2CjVumUbEGWcMikcoXBD

.pre-commit-config.yaml

@@ -34,15 +34,19 @@ repos:
         # rationale, under which a fixture or vendored tree containing
         # `.../.claude-plugin/marketplace.json` would have been silently excluded
         # from formatting while an equivalent
-        # `.../.agents/plugins/marketplace.json` would not. The three root
-        # marketplace manifests match; anything else is hand-authored and gets
-        # formatted. The twelve per-plugin `plugin.json` alternatives were
+        # `.../.agents/plugins/marketplace.json` would not. Only the one root
+        # marketplace manifest matches now; anything else is hand-authored and
+        # gets formatted. The twelve per-plugin `plugin.json` alternatives were
         # dropped with the plugin manifests themselves when native
-        # `claude plugin install` support was removed -- apm probes `apm.yml`
-        # and never reached them.
+        # `claude plugin install` support was removed (ADR-0024) -- apm probes
+        # `apm.yml` and never reached them. The `.agents/plugins/` and
+        # `.github/plugin/` marketplace mirrors went the same way, and their
+        # alternations went with them: `check-useless-excludes` fails on a
+        # pattern that matches no file.
         #
-        # `.claude/settings.json` is the sixteenth, and it is excluded for a
-        # different reason: apm OWNS that file (ADR-0018, ADR-0019), and
+        # `.claude/settings.json` is the second and last alternation, and it is
+        # the only one here for a reason other than "generated manifest":
+        # apm OWNS that file (ADR-0018, ADR-0019), and
         # `apm audit --ci` replays the install into a scratch tree and diffs
         # the result byte-for-byte. `pretty-format-json` sorts object keys
         # unless `--no-sort-keys` is passed, while apm's hook integrator emits
@@ -53,7 +57,7 @@ repos:
         # happened when the SessionStart hook first landed in 2e395a4.
         # Re-running `apm install` fixes the file; leaving it in scope here
         # would re-break it on the very commit that carries the fix.
-        exclude: '^(\.claude-plugin/marketplace\.json|\.agents/plugins/marketplace\.json|\.github/plugin/marketplace\.json|\.claude/settings\.json)$'
+        exclude: '^(\.claude-plugin/marketplace\.json|\.claude/settings\.json)$'
       - id: check-yaml
         stages: ['pre-commit']
       - id: trailing-whitespace