Force iTunes to Sync Videos

I have several hundred TV show episodes in my iTunes library that are in H.264 format at [email protected] but with a low enough bitrate that they play on my Apple TV 2 fine. They also play on my iPod touch 4G through AirVideo without transcoding. So I know they will play on my iPod but iTunes still won't sync them. I get an error saying that the video will not play on my iPod. Is there anyway to force iTunes to sync it?
Thanks
P.S: I know I can use the VLC app to save them to my iPod and play them like that, but I would really prefer to just do it all through iTunes and the Video app on my iPod. I also want to use AirPlay to stream them from my iPod to an Apple TV, so I mist use the stock Videos app for this.

The tech specs for the 4G H.264 video are:
H.264 video up to 720p, 30 frames per second, Main Profile level 3.1 with AAC-LC audio up to 160 Kbps per channel, 48kHz, stereo audio in .m4v, .mp4, and .mov file formats;
Note i says level 3.1 but it appears that yours are L4.1. That may be the problem. Have you tried the Convert to Ipod and iPhone Version in the Advanced tab of iTunes?

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