Stop Stop Stop
You make an interesting point.
As a PPL with a few hundred hours (many on Archer), I was fortunate enough to be given 20 hrs instruction in a full motion sim by an IRE.
There were three aspects that are probably 2nd nature to you that I found challening about 'handling' the sim.
Firstly, learning to think ahead at 320kias was challenging - thus navigation was an issue for a while.
Secondly, the response rate of the sim was rather slower than a light aircraft, no instant response to aileron and this added to faster airspeed was tricky until I learned to think well ahead, combined with the trimming variation over the 'speed range' of the sim.
Thirdly, flying a 'profile' during the descent was alien to a non IMC qualified PPL. (Mind you, I suppose that they weren't too bothered about how neat the descent was anyway.)
Having said all of that, one does learn with practice (and good instruction), but I personally doubt that MS FS would help much and totally agree with your point in this respect.