Just adding my 2 cents, Melodyne sometimes does some real funking tempo maps during certain sections of a track. Not all the time but most of the time on my end. Don't have a clue what causes this but it is so inconsistent that I am about to abandon its usage and go back to manually adjusting the TEMPO map.
However, per the OP, I think I hear that the OP only wants to mix his dual audio tracks that don't follow a tempo. And as such, wouldn't need a metronome or tempo map for such editing and should just leave the metronome off for both playback and record. Record the audio track(s) and mix your heart out during playback.