The baseball draft has always been a crap shot. I mean, you can do this for a lot of teams. The biggest thing with the Jays has been their ability to get / trade for talent like Bautista, Eddy, JD, Saunders. Even Lawrie, Escobar and Rasmus before they were traded. This is just the norm of how a lot of baseball teams operate.
E: With that being said, yea JPR dropped the ball often in drafts. Drafting with AA overall has been better from what I can tell.