Call Magnum, This One Is A Mystery (Also posted on the COW)

Here's an interesting case file. I started a small project in FCP 5.1.4 and my friend wanted some 3D effects from Motion 3 so we intalled FCS2. It was a 3 camera shoot on DV. When I went to open the project in FCP 6.0.1 random pieces of footage were playing back horribly out of sync. So, I right clicked and chose "Reveal in Finder" when I opened the source clip in Quicktime the clip plays back perfectly. I tried exporting XMLs, opening the project on a different computer, all with the same result. Can anyone help me?

Oh, one last thing, another project off the same drive opened up in FCP6 perfectly and that wasn't cuts only (a few dissolves).

Here's my gear list:

MacBook Pro 15"
1GB RAM
All software is up to date
Western Digital 160GB Passport drive. (It's a DV cuts only timeline)

Thanks in advance,
Ryan Cates
Burbank, CA