Did my little test all over again - with the difference that the SD cards in both cams (with ML) are now exFat, just to eliminate the cams from following the format from the SD-card (until yesterday they were fats, until I forced exFat on them, Ml'led and fir'red - ML works just fine.) I formatted both CF cards, the 64GB in my 123 and the 128GB in my 113, and both were "reduced" to fat32, so obviously my two cams haven't learned how to do exFat. I put both cards back in my card reader and PC-reformatted them back to exFat. The cams accept the exfatted cards and install dcim and misc folders without any problem.
So my experience tells me, that what I have thought to be true - that 5d formats bigger cards (128>) with exFat - isn't correct, at least with my cams. From now on I'll only rely on my PC to exfat my cards.
Even the respected DP Review maintains in their thread 5D Mark III video time limit, that 128GB cards will be exfat-formatted in cam - which my cams don't seem to know.
Of course the major weakness with my argument is, that I haven't tried cards larger than 128GB.