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Last edited by TBMNY; 19th Jun 2018 at 22:01.
I would agree you dropping the time codes (timing information) seems to be the problem.
Extract the time codes using ffmpeg or other tools that are capable of doing so and add them afterwards using mp4fpsmod or similar.
Alternatively use ffmpeg for the whole remuxing while keeping the time codes.users currently on my ignore list: deadrats, Stears555
First one won't work because the remuxed file actually becomes a constant 25fps so all those extra frames are lost. As for the second one, not sure how to do that.
Something like (may need more options depending on your muxer):
ffmpeg -i myinput -c copy -copyts myoutput
My input file is TS and that just outputs TS.