Could be an OS issue.
What do the files look like in the Finder?
If they display the wrong icon, perhaps cleaning the System Caches with a IceClean or Onyx would help. Or just run the whole suite of cleanup utilities.
If they only look wrong in Pr, I'd delete the prefs. If that doesn't help, I'd reinstall Pr.
When I go to reconnect the media, the files show up on the hard drive, but it's a Unix Ex. File, not the video files.
Jim > that means he's on OSX and the finder show those files as being unix executables. I saw this happen with corrupted files.
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I see them on many kinds of files, not necessary corrupt. The Finder is just confused is all. Sometimes you'll see the Unix.exe icons for a short time, then they get replaced the proper icon. That's why I suggested OS maintenance.
Some times, I'll get a media disk from someboy who uses Windows, and after mounting on a Mac, the icons are wrong. But, after a few seconds or minutes, they become right.
I had this happen after I activated my trial version of CS6 where all the video files were never moved but CS6 wouldn't see them. Further if I tried to reimport or relink the video file it wouldn't have any sound associated to the file at all. So what I did is closed CS6, moved all the XMP files that are associated with the video files to a backup folder, launched cs6, opened up my project and CS6 recreated the xmp files to correctly associate and all was good and the running just fine again!