Upon further investigation, it looks like it’s not just the audio, that was just the more obvious part. The video cuts are off as well. In fact, in the CS4 project, the time code is a little over a second ahead of the CS3. So, if I reveal an edited clip in the source monitor in both CS3 and CS4, they don’t match up, even though the timecode is the same. I actually have to change the edit points in CS4 to match my original edits in CS3. Why would this be?