Anthopoulos himself has said in interviews that he grew and learned a lot from Zaidi/Friedman about sustainable winning. He's not the same guy he was with us. He's clearly a very talented GM, but you could argue he was still developing as an executive while with us and hit his stride with Atlanta.
I think his strengths lie with putting finishing touches/adding to a good core, but I don't think he's a great builder the same way Shapiro/Atkins are. He neglected investing in important infrastructure like player development & facilities and instead focused exclusively on the major league roster. It's no surprise that our prospect pool started thriving as soon as Shapiro/Atkins came into the helm. The current regime has poured a TON of $$ into R&D, player development, strength & conditioning, mental skills, nutrition, facilities, all of which not only help younger players flourish, but are attractive to free agents as well. You could argue a guy like Biggio might've never made the majors with AA's system, whereas now he's at least a useful utility guy.
I will respect AA for always giving it 110% though. He was relentless in his pursuit to make the team better. And clearly he's adjusted his philosophy, because he doesn't trade away that many prospects now. I'm less bullish on his actual drafting with Atlanta, albeit that may be more of a Dana Brown problem.