Why is after effects turning my Prores audio into white noise
My guess would be that AfterEffects is assuming something about the audio format which Quicktime is handling correctly but AE is not.  Check your format settings; you might need to specify a different byte ordering (also called "byte swapping") or tell it to be explicitly 16-bit instead of, say, 24-bit.  In Quicktime you can see what the audio format is via the movie inspector.