Jerky playback with dropping frames after iPod/iPhone Conversion

Hi!
I have a problem converting quicktime hd material to iPod/iPhone H.264. I know that there are iPhone Trailers available on the Apple Movie Trailer Page, but lets take a trailer as an example video source, because they are free to use and are leading to the "dropping frames" problem.
Source video data:
H.264/MPEG-4 AVC
23.976 fps
5755 Kbps (VBR)
1280x720 (16:9) / Progressive
Converted video data:
H.264/MPEG-4 AVC
23.976 fps
1472 Kbps (VBR)
640x360 (16:9) / Progressive
While the source video playback is smooth in quicktime, the converted video drops frames and the playback is very jerky.
The problem occurs with every single trailer i tried (e.g. The Curious Case Of Benjamin Button).
I also tried to convert the material with visualhub (ffmpeg/vlc) - same result.
Has anyone ideas how to solve this problem? Thanks in advance!
Message was edited by: florian.kloppe

The issue could very easily be insufficient hard drives. You really should have a minimum of three internal drives for editing. A single 5400 RPM drive is bound to cause lags.

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