Well.In real basketball, players aren't born 85% FT shooters.. they practice them every day. If you don't, you're no good at them.
I think the issue OP adresses is the fact that we have hundreds of players in this game that shoot ~50% from the field, ~45% from behind the arc and 15% from the charity stripe. I had one of those players and find it "too" unrealistic to be ignored.
FT is not trained much because you would probably need a whole season to change a 10%-guy into a 70% shooter, that would probably be a difference of 20 points scored more - if you invest the same amount of time in another area you will get much better results and output.