The biggest problem with madden is that it doesn't take team dynamics or coaching philosphy into play enough.
If you have, say.. Bailey and Surtain as corners, and Parrish and A. Williams as safeties.. well, there's no point in passing against your team. Period.
On the other hand, even with a team coached and organized as well as the Patriots, they're sub-par in Madden simply due to the lack of player stats. The players may be mediocre to slightly above average, but they're plainly one of the best teams in the NFL - largely due to coaching and team mechanics.
Obnoxious, yeah... but that's the game.