docs: record known issues from 7 rounds of Codex review

API enhancements, test coverage gaps, conventions, and compile
issues — all acknowledged and tracked for future work.

Co-Authored-By: Virgil <virgil@lethean.io>

docs/known-issues.md

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+# Known Issues — core/agent
+
+Accepted issues from 7 rounds of Codex review. These are acknowledged
+trade-offs or enhancement requests, not bugs.
+
+## API Enhancements (brain/direct.go)
+
+- `direct.go:134` — `remember` drops `confidence`, `supersedes`, `expires_in` from `RememberInput`. Standalone clients can't set persistence metadata.
+- `direct.go:153` — `recall` never forwards `filter.min_confidence`. Direct-mode recall can't apply confidence cutoff.
+- `direct.go:177` — `recall` drops API-returned tags, only synthesises `source:*`. Callers lose real memory tags.
+- `provider.go:303` — `list` forwards `limit` as query-string value instead of integer. REST path diverges from MCP contract.
+
+## Test Coverage Gaps
+
+- `pkg/lib` has no dedicated tests for template extraction or embedded prompt/task loading.
+- `dispatch`/`review_queue`/`spawnAgent` have no integration tests. Need test infrastructure for process mocking.
+- `drainQueue` complex logic has no unit tests with filesystem scaffolding.
+
+## Conventions
+
+- `defaultBranch` falls back to `main`/`master` when `origin/HEAD` unavailable. Acceptable — covers 99% of repos.
+- `CODE_PATH` interpreted differently by `syncRepos` (repo root) vs rest of tooling (`CODE_PATH/core`). Known inconsistency.
+
+## Compile Issues
+
+- `pkg/setup` doesn't compile — calls `lib.RenderFile`, `lib.ListDirTemplates`, `lib.ExtractDir` which don't exist yet. Package is not imported by anything.
+
+## Changelog
+
+- 2026-03-21: Created from 7 rounds of Codex static review