The easy solution you wrote here. Create multiple instances of the app and export with them.
Incidentally this may not be ideal but I've made two extra (three was too much for my 2012 MBP 2.6 GHz i7 16GB to handle) copies of MLV Apps on the desktop and can '
multithread' by running all three at once. Just beware of your machine singing its praises!

...one of the feature still missing is an automatically skip problematic frames.....Would be nice to have an option to have this skipped automatically, could be very usefull imho.
+10
Basically my recent experience w 1.4 went from an ETA of 96 hours countdown for 1.1 TB worth of MLV's to a mere 9 days and still counting... Waking up in the mornings every now and then seeing MLV App had crashed overnight or at least until to the next day if not second. This app is still so fkin' good that I want to keep it going regardless of this gruesome dreadful time consuming never-ending roundtrips of horror.

I know, I know... technically speaking this
isn't up to par for paid gigs (just
yet) but hey I forced myself to go 100% on MLV App just for this small project of mine. Very happy with the grade and noise reduction is indeed quite impressive. Even for footage shot in ISO 6400 without using DF Avg. No need for Neat.

Still haven't wrapped my head around the DF feature within MLV App yet. Will get to that point once I am done with this project and thank you all for your continuous support!