Can't Save After Editing Waveform From Multitrack FCP Export

Question

I've exported a multitrack project to Soundtrack Pro from a sequence in Final Cut Pro. I chose destructive editing, which may have been a mistake. I've made extensive changes to the audio, in particular lots of noise reduction.
Now when I try to save certain of the clips it shows it saving and then it gives me the not-too-descriptive message "The document "(filename)" could not be saved."
I can save the project, no problem, but when I try to quit Soundtrack Pro, it tells me I have 4 Soundtrack Pro documents with unsaved changes.
I've done "Save as" and "Save a copy as" on the clip and it will save it, but after the save, Sountrack Pro is still referencing the old file (which is also the file that shows up in the bin.)
What am I doing wrong? Also, is there a way to tell SP that I've done a "save as" or "save copy as" and want that to be the audio referenced in the project? I'm leaving it running in hopes of finding a solution and not losing my changes. Help!
Mac Pro   Mac OS X (10.4.7)   4 x 500 GB, 4 GB RAM, 2 x 30" Displays

Answer 1

I made some progress on this. After doing a "save as" or "save a copy as" on the audio you're editing, you can go to the bin and control-click on the file you can't save to, pick "select all occurrences" and then control-click on the newly saved file and pick "replace selected clips."
Also I don't know if this is helpful, but /var/log/system.log had a number of failures around the time I was trying to save:
Aug 27 19:24:08 PowerStation kernel[0]: (76: coreservicesd)tfp: failed on 0:
I used disk utility to compare my second, third and fourth drives with my system drive and noticed that journalling wasn't enabled on the non-system drives. I enabled them. I super doubt that made any difference other than on disk performance.