Capturing only 1 audio track when there are 2 audio tracks

Has this happened to anybody ?
I had to fiddle with the capture settings in Final Cut to accommodate for progressive HDV video. When I changed it back to my normal interlaced HDV video, I had trouble with the sound tracks. (I have tried changing all the settings in the HDV 50i possibilities. I'm in europe)
I only get one sound track in stead of two (but I can hear both sound tracks when I capture).
If I get 2 sound tracks, They aren't imported into the project. If I try to import them without restarting, final cut doesn't recognize them.
But recently, no matter what I do (changing settings) I only get 1 audio track.
Ideas ?
Thanks !

I would like to add to this thread. I have this same issue, it's extraordinarily frustrating, and I'm not finding any useful information online. This is a serious bug and hopefully it can be addressed.
FCP 7.0.2
MacPro 2 x 2.26 GHz Quad-Core Intel Xeon
16 GB RAM
Mac OS 10.6.4
I'm trying to capture HDV 1080i footage shot on a Sony V1U, using a Sony HDV deck that I've used hundreds of times without running into this issue. The footage has two audio tracks -- of this I am absolutely 100% certain -- yet when batch importing clips, Final Cut captures only 1 track. This happens whether or not I have it set to capture a stereo pair or two mono tracks.
Again, there is no issue with the tape or the audio. It's there. I can sit and watch the preview meters in the FCP clip settings tab as I play it, and both channels register and display levels independently. Final Cut is capturing only one of them. For the life of me I can't figure out why.
I have trashed preferences. Restarted. Rebooted. Tried multiple Easy Setups. I still get only one track of audio when batch capturing. Amazingly, if I Capture Now from the exact same tape, I get two channels of audio. I have a project with hundreds of clips already logged - I need to batch capture them.
If anyone has insight into this bug, please help. Thanks!

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