Thanks for the info. I'm at work now and not at my Mac, so I can't check on everything, but my audio was set at 16 bit and there were not any time code breaks. I tried the capture again, this time having the camera set on play and paused when I began capturing the video and it captured just fine. Maybe starting the capture first and then starting to play the video to be captured is part of the problem. From now on I'll start my video first, and then start my capture instead of the other way around.
I can't remember how I had it set up at 32kHz or 48kHz. I'm not sure when to use one or the other actually. Any thoughts as to when to use one over the other?