NTFS Partition is trashed, could somebody tell me how to fix it?

When I started up my Vista computer today, after I ran a bootup defrag (Diskeeper 2008, if it helps any), I couldn't boot into either my Vista Home Premium or my Wubi 8.10 Kubuntu install on the same partition. When I tried to use the recovery disk that came with my laptop, it said it would fix the problem, but it hasn't. In fact, when I ran chkdsk /R it would come up with an "Unspecified Error: as soon as either stage 2 or stage 3 ended, I can't remember which. When I forced a mount on my old Ubuntu 8.04 disk. It wouldn't show not even half the files but the free space matches up with the amount I had before that stupid defragmentation run. I think the MFT was trashed, but the files are still in there somewhere. Is there any way to recover the files? I would restore from backup, but ironically I was going to get me a bunch of DVD's to start backing up my computer! System restore has nothing to restore to so now I'm screwed! Is their any hope for the files I had on my hard drive? (Probably about 1000+ aren't showing up!) And is there a way for me retrieve the file stucture as well?

yes- use mepis 3.3

Allows Access to non-encrypted files/folders on drive. download and follow instructions.
http://www.vistax64.com/tutorials/172852-bypassing-log-passwords-access-folders-drive.html?filter[11]=Security%20System%20Tools