Premiere CS6 media offline question

Hey folks! Kinda stuck here...I've got a large project using dozens of files (kept on a 4TB hard drive) and about 90% of the media is offline. I can't figure out why some is and some is not. The project uses footage from 3 cameras, multi-cam edits and there are 13 nested sequences, as well. 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. I am beyond perplexed. Any advice?
Thanks!

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.

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