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cleanup: CLI simplify pass, correctness fixes, core dedups, scan split, docs sync (−587 net lines) #358

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Run time

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Job	Run time
clippy	23s
test-release	20m 13s
test (ubuntu-latest)	6m 1s
coverage	3m 58s
lint-ecosystems	8s
dispatch-tests	13s
setup-matrix (maven)	4m 31s
setup-matrix (deno)	3m 15s
setup-matrix (gem)	3m 23s
setup-matrix (cargo)	3m 14s
setup-matrix (golang)	2m 58s
setup-matrix (nuget)	3m 17s
setup-matrix (pypi)	4m 25s
setup-matrix (composer)	3m 9s
coverage-docker (nuget)	5m 41s
setup-matrix (npm)	4m 1s
coverage-docker (maven)	6m 8s
coverage-docker (deno)	4m 44s
coverage-docker (cargo)	5m 32s
e2e-docker (golang)	4m 10s
e2e-docker (deno)	4m 16s
e2e-docker (composer)	4m 29s
e2e-docker (maven)	4m 33s
e2e-docker (pypi)	4m 48s
e2e-docker (nuget)	4m 43s
e2e-docker (gem)	4m 29s
e2e-docker (cargo)	4m 41s
coverage-docker (gem)	5m 27s
coverage-docker (composer)	5m 38s
coverage-docker (golang)	5m 35s
e2e-docker (npm)	4m 35s
test (windows-latest)	12m 55s
coverage-docker (npm)	5m 21s
test (macos-latest)	6m 5s
coverage-docker (pypi)	5m 45s
coverage-merge	-1s
e2e	-1s
	2h 52m 42s