FineDreadHawk

Recovery Console from a cd (if running from cd) should not fail on fixing a file system, other useful commands are fixboot and fixmbr, from those you can use chkdsk to fix the filesystem without error. (Had to use those thanks to SP 3 update screwing my filesystem). Its possible that during those 90 percents etc you were canceling while defraging system volume information which as you can guess holds the volume information of the drive. Don't know how that would cause a problem, but computers are funny and even a minor power off can screw them over.

3 hours? Well how many files you move how many files you add, alone for me at 2% Fragmentation Windows Defrager takes 20 minutes. Defraggler is about the same, also did you restart, were these files large small.. Everything you do on a computer hard drive causes fragmentation, even your computer idling causes fragmentation thanks to page files. Even a restart causes fragmentation, of course all that is really small did you happen to see how many fragments there were, anything thats helpful besides how long it took and the fact you canceled it? Also did you try Windows Defrager after the fact or leave all the fragmented files..

I wouldn't defrag pagefile.sys it is virtual ram, its pretty much like telling a program to defrag you're Ram Sticks.. Its just not going to work its constantly changing, its reset on restart, and it just holds instructs for a time being. Most likely what happened is the files Pagefile.sys was pointing to those files because they were currently in access so I would delete Pagefile.sys and restart your computer if you can't just restart either way should work, as for those fragmented files I would use Windows Defrager then Defraggler to see if they are still there, and not try to defrage pagefile.sys in the future.