I've got two ways:
1. Don't upgrade physical stats. Do upgrades in line with H2H. It makes FUT even more arcade like. My TOTS David Silva last year was out jumping so many CBs - normal cards. That should not be happening.
2. Upgrade the stats they deserve based upon their performance. Granted that would mean EA have to watch real football. Lacazette getting his UEL card for a free kick against Napoli and he only had 73 FKA, bit of a joke really.