fix: close the three spawn spec gaps taking spawn_drift red

docs/pyautobrain/spawn_spec.md

@@ -32,8 +32,9 @@ deliberately, never silently shipped into a template.
 | # | Pattern | Action |
 |---|---------|--------|
 | 1 | `scripts/**` | KEEP verbatim (generic tooling: repos_sync, prompt_sync, status, spawn itself) |
-| 2 | `REFERENCE.md`, `AGENTS.md`, `CLAUDE.md`, `LICENSE`, `CONTRIBUTING.md`, `ROUTING.md`, `.gitignore` | KEEP verbatim |
+| 2 | `REFERENCE.md`, `AGENTS.md`, `CLAUDE.md`, `LICENSE`, `ROUTING.md`, `.gitignore` | KEEP verbatim |
 | 3 | `README.md` | KEEP verbatim (already generic post-Phase-1) |
+| 3b | `AI_POLICY.md`, `CONTRIBUTING.md` | KEEP with owner substitution — both are org-wide pointer docs: generic prose that names the owning org and links the canonical copy inside that org's `PyAutoScientist`. They take the same `PyAutoLabs` → `YOURORG` substitution as rule 9 rather than a verbatim KEEP; verbatim would stamp a literal "Contributing to PyAutoLabs" into a template spawned for another org |
 | 4 | `repos.yaml` | SUBSTITUTE → the **template body map**: the five organ rows kept with `github:` owner replaced by `YOURORG`; all live satellite rows replaced by the PyAutoProject family rows (`PyAutoProject` category `library`, `autoproject_workspace` category `workspace`, `autoproject_workspace_test` category `workspace_test`) + a commented-out `autoproject_assistant` row ("uncomment when the clone agent seeds it") |
 | 5 | `active.md`, `planned.md`, `parked.md`, `condemned.md`, `ideas.md`, `queue.md`, `autonomy_log.md` | EMPTY → header line + schema pointer comment only (e.g. `# Active Tasks` + `<!-- schema: REFERENCE.md -->`); autonomy_log keeps its schema header rows |
 | 6 | `draft/**` (the work-type dirs `feature/ bug/ refactor/ docs/ test/ release/ maintenance/ research/ experiment/ triage/` now live under `draft/`) | SKELETON → keep a single `draft/.gitkeep`; drop all draft prompts and their work-type/target subdirs (a fresh Mind starts with an empty `draft/`; intake recreates the work-type subdirs on demand) |
@@ -47,7 +48,8 @@ deliberately, never silently shipped into a template.
 
 | # | Pattern | Action |
 |---|---------|--------|
-| 1 | `bibliography/*.py`, `bibliography/README.md`, `scripts/`, `tests/`, `Makefile`, `LICENSE`, `CONTRIBUTING.md`, `AGENTS.md`, `CLAUDE.md`, `.gitignore` | KEEP verbatim (tooling + schema + policy — scripts/tests are the citation-validation tooling the Makefile drives) |
+| 1 | `bibliography/*.py`, `bibliography/README.md`, `scripts/`, `tests/`, `Makefile`, `LICENSE`, `AGENTS.md`, `CLAUDE.md`, `.gitignore` | KEEP verbatim (tooling + schema + policy — scripts/tests are the citation-validation tooling the Makefile drives) |
+| 1b | `AI_POLICY.md`, `CONTRIBUTING.md` | KEEP with owner substitution — same org-wide pointer docs as the Mind table's rule 3b |
 | 2 | `bibliography/*.bib` and any bibliography data files | EMPTY → file kept with header comment ("populated by your literature") |
 | 3 | `wiki/CLAUDE.md` (the shared schema) | KEEP verbatim — since the wiki/ restructure (PyAutoMemory#24) the schema is a single domain-neutral file at `wiki/CLAUDE.md`, kept canary-clean at the source (its examples carry no instance tokens), so spawn no longer maintains a duplicate schema asset |
 | 4 | `wiki/*` (all live sub-wikis, all pages) | DROP; generate instead ONE `wiki/example/` containing a slim scope-only `CLAUDE.md` (the schema is inherited from rule 3, not copied), an `index.md` skeleton listing zero sources, and one `sources/EXAMPLE_stub.md` demonstrating the stub format (hand-written once, stored inside spawn as a heredoc/template asset — not copied from live content) |

draft/bug/autolens/jax_point_source_point_smoke_sentinel.md

@@ -0,0 +1,149 @@
+# JAX point-source smoke sentinel: point.py returns -1e99 instead of -83.38
+
+Type: bug
+Target: autolens
+Repos:
+- @PyAutoLens
+- @PyAutoGalaxy
+- @PyAutoArray
+- @autolens_workspace_test
+Difficulty: medium
+Autonomy: supervised
+Priority: normal
+Status: draft
+
+> Restored 2026-07-27. This prompt file was dropped from the flat `issued/` pile
+> during the prompt-lifecycle migration (PR #71/#72) as "legacy", but the task was
+> never done — its `planned.md` entry stayed live and pointed at the deleted path.
+> Body below is the original 2026-05-21 content, verbatim.
+
+Smoke regression surfaced during the `fast-viz-zero-contour-perf` task
+(workspace PR https://github.com/PyAutoLabs/autolens_workspace_test/pull/111).
+
+`autolens_workspace_test/scripts/jax_likelihood_functions/point_source/point.py`
+fails its hardcoded `assert_allclose(np.array(result), -83.38049778, rtol=1e-4)`
+check on canonical `main` of all three libraries — `fitness._vmap(parameters)`
+returns the `-1e99` sentinel (the chi-squared "non-finite likelihood" reject
+value used by `FitPositionsImagePairAll`) instead of the expected -83.38.
+
+Reproduces identically on canonical main with no workspace-PR changes applied,
+so this is a library-side regression, not anything from the current task.
+
+## Observed symptom
+
+| Script | Expected (hardcoded) | Actual (vmap) | Notes |
+|---|---|---|---|
+| `jax_likelihood_functions/point_source/point.py` (L234-239) | `-83.38049778` | `-1e99` (sentinel) | Pre-existing on `main` 2026-05-21 |
+
+The -1e99 value is the standard `FitPositionsImagePairAll` sentinel for
+"position-pairing rejected this model" — the JAX vmap path is treating every
+sampled parameter set as a reject, which means either every position is
+failing to be paired or every solver call is returning `inf`/`nan` rows.
+
+## Last known good
+
+The literal `-83.38049778` was set on **2026-05-08** in
+`autolens_workspace_test@362cfa8` ("rebaseline JAX point-source likelihood
+literals after noise-scale change"). At that commit the smoke passed
+end-to-end against the libraries-of-the-day. Something in PyAutoLens /
+PyAutoGalaxy / PyAutoArray between 2026-05-08 and 2026-05-21 has broken the
+JAX vmap path through `FitPositionsImagePairAll` for the seed point-source
+dataset committed under `dataset/point_source/simple/`.
+
+## Relationship to PyAutoLens#514
+
+`PyAutoPrompt/issued/jit_regression_constant_drift.md` already tracks a
+drift in `autolens_workspace_developer/jax_profiling/jit/point_source/image_plane.py`
+filed as https://github.com/PyAutoLabs/PyAutoLens/issues/514. That ticket
+exercises the **same JAX code path** (`PointSolver` + `FitPositionsImagePairAll`)
+but a different symptom (constant drifted 0.07 → -362, not a -1e99 sentinel)
+on a different file (the profiling script in `_developer`, not the smoke
+script in `_test`).
+
+Two hypotheses worth holding in tension during triage:
+
+1. **Same root cause, different manifestation.** A change in `PointSolver`
+   triangle refinement or `FitPositionsImagePairAll` position-pairing could
+   produce a drifted-but-finite value on `image_plane.py`'s seeded inputs
+   and a clean-reject sentinel on `point.py`'s seeded inputs, if the latter
+   is closer to a pairing-threshold edge case. If so this prompt and #514
+   resolve together.
+2. **Two independent regressions.** The -1e99 sentinel is qualitatively
+   different from a sign-flip drift — it could be a separate JAX-path bug
+   (e.g. a tracer-typed quantity being compared with a NumPy threshold,
+   forcing the whole batch into the reject branch). If so this needs its
+   own library-side fix.
+
+Either way the symptom is severe enough to warrant a separate triage line.
+
+## Task
+
+1. **Reproduce** on canonical main of all three libraries:
+   ```bash
+   cd ~/Code/PyAutoLabs/autolens_workspace_test
+   git checkout main && git pull --ff-only
+   git -C ../PyAutoLens checkout main && git -C ../PyAutoLens pull --ff-only
+   git -C ../PyAutoGalaxy checkout main && git -C ../PyAutoGalaxy pull --ff-only
+   git -C ../PyAutoArray checkout main && git -C ../PyAutoArray pull --ff-only
+   python scripts/jax_likelihood_functions/point_source/point.py
+   ```
+   Confirm the AssertionError and capture the actual vmap output.
+
+2. **Bisect across the three libraries** since 2026-05-08:
+   ```bash
+   git -C ../PyAutoLens   log --oneline --since=2026-05-08 -- autolens/point/
+   git -C ../PyAutoLens   log --oneline --since=2026-05-08 -- autolens/analysis/
+   git -C ../PyAutoGalaxy log --oneline --since=2026-05-08
+   git -C ../PyAutoArray  log --oneline --since=2026-05-08
+   ```
+   Prime suspects (matching the #514 candidate-list):
+   - `PointSolver.solve` and the triangle-refinement loop
+   - `FitPositionsImagePairAll` chi-squared assembly
+   - Anything touching `positions_noise_map` application or `xp`
+     propagation through the point-source stack
+
+3. **Diagnose where -1e99 enters.** Drop a `jax.debug.print` (or eager
+   NumPy-path run) inside `FitPositionsImagePairAll.log_likelihood_function`
+   to see whether:
+   - every pair distance is `inf`/`nan` (solver returning bad positions);
+   - the pair-permutation `argmin` is selecting the wrong index;
+   - the χ² → log-likelihood reduction is hitting an inf/nan that triggers
+     the sentinel branch.
+
+4. **Decide per finding**:
+   - If the new behaviour is **a library bug** → file against the responsible
+     PyAuto* repo, cross-reference both this prompt and #514, leave the smoke
+     literal as-is (the failing assertion is load-bearing while the bug is
+     open).
+   - If the new behaviour is **a deliberate change** (noise-map convention,
+     pairing semantics) → rebaseline the literal in `point.py`. Also re-run
+     `image_plane.py` and `source_plane.py` from `jax_likelihood_functions/point_source/`
+     since they share the seed dataset and may need matching updates.
+
+5. **Spot-check the sibling JAX smoke scripts** in
+   `autolens_workspace_test/scripts/jax_likelihood_functions/point_source/`
+   (`image_plane.py`, `source_plane.py`) — they share the seed dataset and
+   may exhibit the same regression, in which case the fix is unified.
+
+## Out of scope
+
+- Re-running the full `autolens_workspace_test` smoke suite — only the
+  three point-source JAX scripts need verifying for this triage.
+- The constant drift in `autolens_workspace_developer/jax_profiling/jit/point_source/image_plane.py`
+  tracked by #514 — share findings, but don't expand this prompt into that
+  one. Update #514 with whatever the bisect surfaces.
+- Regenerating the seed dataset under `dataset/point_source/simple/` — the
+  files are committed, the literals were set against them on 2026-05-08, so
+  the dataset is *not* the moving variable here. Do not run
+  `PYAUTO_SMALL_DATASETS=1` during triage — it would delete the committed
+  seed data.
+
+## Pre-existing context
+
+- Last known-good rebaseline: `autolens_workspace_test@362cfa8` (2026-05-08)
+- Related JIT profiling drift: `PyAutoPrompt/issued/jit_regression_constant_drift.md` → PyAutoLens#514
+- Smoke philosophy: workspace `scripts/CLAUDE.md` documents that the
+  hardcoded literals in `jax_likelihood_functions/` are intentional
+  absolute-regression markers — don't relational-rewrite them away.
+- Surfaced by: workspace PR https://github.com/PyAutoLabs/autolens_workspace_test/pull/111
+  (fast-viz-zero-contour-perf), noted in that PR body.

planned.md

@@ -133,7 +133,7 @@
   - PyAutoBuild
 
 ## jax-point-source-point-smoke-sentinel
-- prompt: PyAutoMind/issued/jax_point_source_point_smoke_sentinel.md
+- prompt: draft/bug/autolens/jax_point_source_point_smoke_sentinel.md
 - status: planned
 - filed: 2026-05-21
 - classification: library (triage; routing TBD by bisect)

scripts/spawn.py

@@ -43,9 +43,15 @@
 MIND_RULES = [
     ("scripts/*", "KEEP"),
     ("REFERENCE.md", "KEEP"), ("AGENTS.md", "KEEP"), ("CLAUDE.md", "KEEP"),
-    ("LICENSE", "KEEP"), ("CONTRIBUTING.md", "KEEP"), ("ROUTING.md", "KEEP"),
+    ("LICENSE", "KEEP"), ("ROUTING.md", "KEEP"),
     (".gitignore", "KEEP"),
     ("README.md", "KEEP"),
+    # Org-wide pointer docs. Generic prose, but each names the owning org and
+    # links the canonical copy in that org's PyAutoScientist — so they take the
+    # same owner substitution .github/** does rather than a verbatim KEEP.
+    # Verbatim would stamp "Contributing to PyAutoLabs" into a fresh-slate
+    # template spawned for somebody else's org.
+    ("AI_POLICY.md", "KEEP_SUB"), ("CONTRIBUTING.md", "KEEP_SUB"),
     ("repos.yaml", "SPECIAL:body_map"),
     ("active.md", "EMPTY"), ("planned.md", "EMPTY"),
     ("parked.md", "EMPTY"), ("condemned.md", "EMPTY"), ("ideas.md", "EMPTY"), ("queue.md", "EMPTY"),
@@ -72,8 +78,10 @@
 MEMORY_RULES = [
     ("bibliography/*.py", "KEEP"), ("bibliography/README.md", "KEEP"),
     ("scripts/*", "KEEP"), ("tests/*", "KEEP"),
-    ("Makefile", "KEEP"), ("LICENSE", "KEEP"), ("CONTRIBUTING.md", "KEEP"),
+    ("Makefile", "KEEP"), ("LICENSE", "KEEP"),
     ("AGENTS.md", "KEEP"), ("CLAUDE.md", "KEEP"), (".gitignore", "KEEP"),
+    # Same org-wide pointer docs as MIND_RULES — owner substitution.
+    ("AI_POLICY.md", "KEEP_SUB"), ("CONTRIBUTING.md", "KEEP_SUB"),
     ("bibliography/*", "EMPTY"),
     (".github/*", "KEEP_SUB"),
     # The shared wiki schema is template content; the sub-wikis are instance