Output audio different than video

From FCP, timeline highlighted, I exported to Compressor. 30 minutes of video and corresponding audio. When it's finished the video is what was in the timeline in FCP, but the audio is from another clip altogether.
I've tried the same steps with other video/audio in the timeline. Same thing. The outputted audio is ALWAYS from the same (different) clip. Compressor version 1.2.1.
The compressed audio is from the first batch of footage I captured for this project. Every time I try and compress something in the timeline the audio is always from this clip.
Any thoughts/suggestions?
thanks!

Hi. I'm running STP 2.0.2 with 5.1 audio through an RME Fireface 400 and sending the video via HDMI from a Black Magic Intensity card to an LCD TV. If I can refer you to page 318 of the manual it states that "When you use a video output device that supports both video and audio output, Soundtrack Pro automatically routes your audio output to this device to provide the best possible synchronization of the audio and video". Therefore not a bug, but a default built into STP.
I'm sure they are correct, but cannot see why this was not added as a preference option. My solution has been to run the LCD TV as a second monitor through it's PC input, which works fine but does not give HD image. I have tried many options (All combos of available audio preferences for system and STP) without success. My next plan is to cut the HDMI cable and disable the audio if possible, but this may not work due to the nature of HDMI (System may believe the HDMI output is an audio capable video device even though audio path has been severed).

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Hi. I'm running STP 2.0.2 with 5.1 audio through an RME Fireface 400 and sending the video via HDMI from a Black Magic Intensity card to an LCD TV. If I can refer you to page 318 of the manual it states that "When you use a video output device that supports both video and audio output, Soundtrack Pro automatically routes your audio output to this device to provide the best possible synchronization of the audio and video". Therefore not a bug, but a default built into STP.
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ronel_8
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3) Computer CPU: 2.4 GHZ
4) Computer RAM: 1.25 GB
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Hello Bill and Steve,
Your responses are very helpful. Although I was not able to fix the problem yet I do seem to think from what you both say that my system may be too slow to capture the one hour video. In any case I will copy below more details about the system as you requested:
1) Results from running Gspot:
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Note: 7.63 GB unneeded bytes at the end of the file
DV Type1 AVI
2) I did run the Gspot on another good avi file (captured to the PC with same camcorder) and says:
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ronel_8

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Output audio different than video

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