I think if you've played zone in RL, or have watch a "proficient" amount of games and looked for what defenses do, you would see mismatches all the time.
It was said before, if your team is good you will still win. The new engine, IMO, is a more realistic representation of top flight basketball. These guys improve the game every season and I for one, am happy they aren't just sitting back.
Plus, guards with 1's and 2's in inside skills and 12 and 13's in outside skills could be deemed inferior to guards with 5's and 6's in inside skills and 10's and 11's in outside skills, which in many cases is true in RL.
Daniel Gibson vs. Delonte West for example. It all depends on your system I guess.
Adapt and overcome friends. If your a good owner and strategist, this is merely a bump in the road.
One thing I will try in my PL is Princeton. Hopefully with the new engine it will be more effective. I think the lack of owners playing it shows its lack of effectiveness.