Madden is total crap this year. Even fan forums like Maddenmania are just completely and utterly loaded with comments like "worst madden ever" and "I'm done with Madden"
Some hilariously notable flaws:
Franchise mode, if teams are left to CPU control, will eventually be populated by generic teams, because the CPU uses the relocation feature but chooses terrible names, cities, and uniforms and kills the NFL realism. If the player controls all 32 teams and prevents this, then the franchise mode will freeze a few years in, because there will not be enough players to fill all the rosters
If you edit players, very often their age will automatically jump to 26, regardless of their previous age or the changes made
And then there are the innumerable flaws, glitches, imbalances, and rough edges.
Now, I own APF and only take the comments above from madden fans, and will readily admit that APF has its fair share of gameplay imbalances and issues, but from a "game-breaking flaw" standpoint, I believe it is clean. Its also the best playing game of football ever made.
Madden on the other hand...I've only played the game at E3 and the demo they released, but it is as unrealistic a game of football as I've ever played, and only recommend it if you're already addicted to the twitch, drop back 30 yards chuck 70 with Drew Brees gameplay.
The biggest weakness with APF is that there's no franchise mode, and little singleplayer offline replayability. But the online is great when you go up against a legitimate opponent, and you can easily weed out the crap by using their record and feedback in conjunction.
And it is very addictive when it comes to making your own teams, designing their unis, etc (although you can only have 8 saved total)
Its not worth more than 40 in my opinion, but its certainly worth more than Madden.