The code in tools/dev/mk_manifest_and_skip.pl is mostly calls to Parrot::Manifest methods. These are reasonably well tested in t/manifest.t, which may be invoked after configuration as:
make manifest_tests These tests will generate a failure if either MANIFEST or MANIFEST.SKIP is in a state where it needs updating. So it doesn't hurt to run them periodically, even though they are not a part of 'make test'. Resolving ticket.