Do you mean what codecs?
Do you mean audio, video, or subtitle?
Not that I have the answers, but the most common video I see is libx264, most common audio is aac and most common subtitle is srt, but last time I did something other than -c:s copy I think I had to call it mov_text.
And, this answer is pretty valueless, because it's only from my own, highly anecdotal, experience.
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