There are a bunch of public domain free files that have hidden revisions because they were wrongly tagged as copyrighted. These can't be imported with fileimporter. How would I move them?
Topic on Help talk:Extension:FileImporter
Get an admin to unhide them. It this is about the English Wikipedia then en:Wikipedia:REFUND is the standard venue.
I see two options. Either ignore the old revisions and manually re-upload only the latest one. Or ask an admin to undelete the revisions on the source wiki before starting the export.
I suspect that these files are mostly logos initially tagged with w:Template:Non-free logo and then re-tagged with w:Template:PD-textlogo. If so, carefully check that the deleted revisions aren't older logos for the same entity (which might be copyrighted).