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Folders within Program Files folder missing after Win2k repair

Hello there.  Does anyone know how to get my program files back after doing a repair on windows 2000? It currently says there are 45 folders but I can't see any of them.  The "show all files" is checked so that can't be it, but I can't think of anything else.  Now none of my programs will work because they can't "find" the files.  Any help would be appreciated.  Thanks!
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sunray_2003
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When you did a repair it sounds like it replaced all of your registry settings.  If you didn't do a backup your done.  Your folders will still be there but none of the registry settings will be that are required to use them.  The only thing you can do is reinstall your programs, this may fix some problems and you may not loose some things but anything that required the registry settings will be lost.  Thats the problem with the repair options.   Basically it only allows you to retrieve data off so you don't lose it.  Your better off repairing copying your documents and any files you dont want to lose and reinstalling.

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MKSKCS

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Thanks for the help guys.  I went ahead and reinstalled the programs individually.  What a pain!  Oh well.  You live and learn.  Thanks again!