When converting analog video to digital to my macbook the audio desyncs halfway through. Any ideas?

I am trying to convert Analog video to digital to my Macbook for work, and every time I run it through my converter the audio De-syncs about halfway into the video. Does anyone know how to go about fixing this issue or have had similar issues to this? I have no issues when converting to my PC, but only my Mac. Thanks!

Hi Rick,
I am extracting the material from the dvd directly using handbrake. The file that handbrake creates lands on the desktop. I then ammend the end of the filename from mp4 to m4v. Following this I click and drag the file onto the itunes icon in the dock. I can then download it to the ipod no problem. The dropouts occur no matter where I play the file. In other words, on the desktop (with QT), in the itunes library and on the pod.
I went back and looked at all the dvd's that are giving me this trouble. The culprit seems to be that the audio signal is in LPCM (linear pulse code modulation). Just for the **** of it, I tried to rip one track using handbrake changing the sampling rate of the audio to 48,000 Hz which I believe is what LPCM uses (previously I had set it at 41,000 Hz in handbrake). But no go, still has dropouts. One of these problem dvd's has a second audio option in AC3 (2ch). As a test, I ripped one song using that. Dropouts are gone. However, the audio is a director's commentary (on the music video he shot) with the music in the background, so it's not what I want.
Is there any way to convert LPCM to AC3? Or any other way to fix this dropout problem.
Thanks,
Pete

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