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cleanup: CLI simplify pass, correctness fixes, core dedups, scan split, docs sync (−587 net lines) #360

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Run time

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Job	Run time
lint-ecosystems	7s
clippy	23s
test (ubuntu-latest)	10m 10s
test-release	25m 53s
coverage	8m 26s
dispatch-tests	12s
test (macos-latest)	9m 46s
coverage-docker (nuget)	6m 3s
test (windows-latest)	14m 57s
coverage-docker (golang)	5m 4s
coverage-docker (cargo)	5m 32s
setup-matrix (npm)	3m 53s
e2e-docker (deno)	4m 17s
e2e-docker (cargo)	4m 32s
setup-matrix (cargo)	3m 15s
e2e-docker (maven)	4m 37s
setup-matrix (maven)	4m 24s
setup-matrix (pypi)	4m 20s
e2e-docker (composer)	4m 20s
coverage-docker (deno)	5m 17s
e2e-docker (pypi)	4m 30s
e2e-docker (golang)	4m 17s
coverage-docker (maven)	6m 14s
setup-matrix (composer)	3m 40s
setup-matrix (deno)	3m 8s
setup-matrix (gem)	3m 31s
e2e-docker (gem)	4m 25s
setup-matrix (nuget)	3m 30s
setup-matrix (golang)	2m 51s
e2e-docker (nuget)	4m 23s
coverage-docker (pypi)	5m 36s
e2e-docker (npm)	4m 3s
coverage-docker (composer)	5m 25s
coverage-docker (gem)	5m 39s
coverage-docker (npm)	5m 27s
coverage-merge	20s
e2e	0s
	3h 12m 27s