fix(hooks): include configured hooks in scoped reads - #394

what changed: Scoped core.hooksPath reads now request Git include expansion. A disposable global-config fixture covers ordinary includes and gitdir conditional includes through preview, install, recorded hand-on and uninstall restoration.

why: Git defaults scoped config reads to excludes, so a configured hooks folder was reported as unset and lost from the hand-on record. Request the effective included value with the existing scoped reader. No alternative design was set aside.

what it touched: machine.mjs, doctor tests, architecture map, changelog and research-kit README inventory. Writes still use the existing Git config writer.

what you verified: verified - red-first 66 passes and one expected include-read failure; then 90 doctor/machine tests passed with zero failures. Handoff OK and preflight PASS in this checkout. The required full offline suite runs in the commit gate before acceptance. Git's config documentation confirms scoped reads need --includes.

what you got wrong and fixed: mistake - the first Windows fixture spelled the conditional Git path with Node realpath, which did not match Git's RUNNER~1 temp-path spelling. A follow-up using --absolute-git-dir targeted the wrong matching path. fix - derive the worktree root from `git rev-parse --show-toplevel`, so Git supplies the path spelling it uses for includeIf. verified - 90 doctor/machine tests passed, zero failures, in 108.5 seconds; the final fixture correction is queued for the full commit gate and supported CI.