[BUG] Missing Chapters ripping Pokemon

[knuxyl]

I am having a hell of time properly ripping the Pokemon DVDs. The problem is that a lot of cartoons I rip contain just a giant mpeg that I have to split later. I manually go through each mpeg and list the start and end chapters for each episode and save it in a text file for parsing later.

The problem with Pokemon is that MakeMKV is ripping chapters, but arbitrarily leaving some out, and seems to ALWAYS leave out the chapters for beginning/ending of each episode.

The first mpeg on the disc contains 3 episodes. VLC shows this section from the DVD and the ripped mkv as 1h5m, with the mkv showing ~4 seconds longer. And yes I triple-checked they are the same video segment.
The original DVD shows 13 chapters for this mpeg.
The ripped MKV shows 8 chapters for this mpeg.

I can't figure out at all what is going on. I have a massive library of DVDs and all my scripts are built around the chapters but MakeMKV isn't ripping this series correctly and I don't know what's wrong or how to fix it. The problem seems to go away around disc 11 (episode 95+). Does anyone have any ideas?

for the record, I know the Pokemon DVDs are garbage quality and have film misplacement issues but idc

[Woodstock]

A question - do the episodes share a common open/close? I ask because I have a similar series, where the open/close are common for a dozen or so episodes, and are NOT included in the individual episode files in the rip. The next partial season changed open/close, then there was a third set of open/close segments.

The play sequences is Opening, episode chapter 1, episode chapter 2, Closing, episode preview.

What gets ripped (except on the episodes where the open/close changed) is episode chapter 1, episode chapter 2, episode preview.