Whether or not the new engine is better than the old is too early to tell. We need larger sample sizes to make real conclusions. That said, I think a good number of people are lookinga the wrong metrics to determine whether the system is "broken."
The question should not be how closely the engine mirrors real life or strikes a perfect balance across all offenses and defenses. Rather, the question should be, are the results under the new engine consistent. That is, all things being equal, will player X perform they same way against players A, B, and C throughout the season. The same goes for team Y. Also, will player X produce results consistent with player Y if on different teams, but all else being equal.
There is no problem in and of itself with 50% 3pt fg or 30 fouls a game. The problem arises if you have 40 fouls 5 games, then 5 fouls 5 games, then back and forth. If the results are consistent, you can game plan, recruit to match the engine, and make adjustments as necessary and expect better results. If the results are widely varient, then it's impossible to predict and the game losses value.
At this point, it seems to me that results have been consistent under the new engine. The complaints seem to be that defense X used to work perfectly under the new engine and now sucks or player A would have been a stud under the old engine and now rides the pine. So what, grow up and adapt. Change happens, learn to deal with it, and show your coaching mettle by adapting to the changes, not clammoring for the old system that you had figured out.