Oh geez.
I think rather than Handbrake, - if the bulk of the movie is in one .m2ts file, just run that through mkvmerge. If you’re gonna re-encode, re-encode the big file, not the AVCHD - because re-encoding a re-encode is absolutely going to look worse.
^ Good point. Downloading all of the despecialized editions and some fan edits has all but cooked my download limit for the month but if you have the available bandwidth go with the larger mkv.
Thanks, Molly 😃