Laurent,
When dealing with NTSC-derived frame rates (29.97, 23.976), the timecodes on HD-DVD and BD are actually non-drop-frame timecodes. But most of the multiplexing programs out there (TSMuxer, MKVMerge) treat them as real time. This leads to the 3.5 seconds per hour offset.
If you convert the timecodes from non-drop-frame to drop-frame, the chapters points will be exact.
This doesn't have anything to do with pulldown removal. The root of the problem is that the OGG chapter format doesn't have any way to specify NDF or DF timecodes, it's up to the program being used to interpret them correctly.
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- SomeJoe
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