Overlay leftover PinScope modules src still imported.

utils, resolve_passives, derating, bom_summary, pin_mux, LED current,
pin-function tokens, plus live analysis validate/validation_tools/pipeline/
validation/extraction, skills, and taxonomy JSON now resolve from
periscope/src. Inherited copies stay in dependency/. repo_paths prefers
src then /app; Docker copies src taxonomy/skills last.

tests/test_native_graph_overlay.py

@@ -30,7 +30,6 @@ def test_graph_parsers_models_taxonomy_load_from_src():
         assert "Native Periscope overlay" in path.read_text(encoding="utf-8")[:400]
 
 
-def test_taxonomy_dir_points_at_inherited_json():
+def test_taxonomy_dir_points_at_json_tree():
     ic = taxonomy.TAXONOMY_DIR / "ic.json"
     assert ic.is_file(), taxonomy.TAXONOMY_DIR
-    assert "src/taxonomy" not in str(taxonomy.TAXONOMY_DIR)