Audio of .mp4 movie files getting distorted by 1 hour mark.

I converted some of my fave movies from DVD to .mp4 file format that my iPod supports. After I did so, I copied several flicks in .mp4 format to my iPod. Each of those movies is at least 2 hours in length. But the problem with iPods playing .mp4 vids is after 1 hour mark of the video, the audio gets distorted up the rest of the movie. My friend with iPod vid also experienced the same problem. We found out that if the movie is in .m4v format, the audio of the same movie length is smooth and clear. This make me think that iPod videos has bugs playing .mp4 video format that has more than an hour in length. Ironically, when I play .mp4 format in Quick time and iTunes (in my PC), the audio is smooth. Does anyone have an idea about that? I appreciate for the answer. Really. Thanks!
AMD Athlon 1.4 GHz; 512 MB RAM   Windows XP Pro   My USB is not 2.0

I think  is the contrary because the clip browser copies all the foleders needed. I got this opinion from another forum that copies into Final Cut:
"My workflow is to create a hard drive folder for the project, then use Clip Browser to import the clips from the card. I review the clips, labelling them, adding logging notes, setting the status and putting in essence marks as needed (the number of characters available for the essence mark description is fairly limited). I then open FCP, create and save a new project then call up XDCAM Transfer. I select the project folder and it will pull in all the clips. I then filter for OK status, occasionally create subclips then import. The clips come over to the bin, with their names and with the essence marks converted to markers. Obviously there are backups taken - I've not mentioned them."

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