Indexing errors

Hi. I have many times been getting the following errors on my hard drives NFTS system WinXPpro 60GB drive.

Sorting index 4i30 IN FILE 14482

Recovering orphaned file 0003 into directory File 14848

The above three lines appeared many times at boot up while it tried to rebuild my drive. My system has a proper copy of windows with SP2. My hardware is a PDP800-E Motherboard. This is the third attempt at redoing this drive and after a few days or weeks of working normally I get this type of error again. Should I go back to FAT? Just prior to this problem I cannot delete many of my file folders if I go into them first and back out to delete them. The system tells me the Folder is in use by another process. I have asked this question before and attempted everything mentioned but so far the problem reoccurs. What can I do?
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