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Internally in vapoursynth, it has to be CFR (constant frame rate)
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No. You can splice mixed fps clips, or even mixed resolution clips, vapoursynth can handle that. But encoding app might fail to understand such clip, that depends on what you're using.
I made x264 input filter and successfully provided vapoursynth timecodes (but code is a bit dirty), you can pick it here and compile:
https://pastebin.com/QhjQ26qG