Through Axel seems to be taking over from QR, especialy as road bikes are now going for Disc brakes.
I must admit, I always thought the QR Axel was quite weedy, and on my none ebike, I use the QR type skewer that fasten using an Allen key, so not Quick to Release on my bike.
I think for an ebike Through Axel should be deriguer, due to the extra forces involved.
As for QR problems on my none ebike, I have never had any, the simply design works well, and replacement Skewers are easy to find, unlike the Through Axel which has to match the specific frame.
Now there is a challenge for me, find a Bafang Max Drive frame with Through Axel design and Sliding Drop-Out's.
Rohloff offer it's IGH with various Through Axel options, although my existing QR Rohloff can not be upgraded to Through Axel, what a jip, that has just added £1000 to the cost of me getting an ebike!
As for brakes, I would never go back to rim brakes, my Hope Mono Mini's have been on my none ebike since 2004, the stopping power is awesome for such a tiny unit, I run 160mm Rotors front and rear.
I would even consider using the none hydraulic Disc brakes from BB, they get very good reviews, rim brakes on the other hand chew away at your rims, even more so for the hydraulic versions as good as they are.
As for Hub motors, I always assumed that they used some kind of threaded Stub Axel, that a dome nut screwed onto, maybe those who have one could explain more.