In all fairness, Manning is a great QB, but Brady is simply better! If Manning was on the Patriots he probably would have won two Superbowls because it boils down to th most important factor between these two teams....Coaching!
BB is a genius when it comes to evaluating talent, devising schemes, motivating, adapting game-plans, and preparation. Dungy, on the other hand is a good defensive coordinator at best. His preaching and bible-thumping may be considered a good motivational tool to some, but in the department of head coaching he doesn't even come close to the level of BB. From this I feel Manning suffers because Dungy hasn't had his teams as well prepared for the big game when he needed to. Had Brady been on some of those Colts teams, Dungy might have benefited from the presence of a cool head that thrives on pressure situations.
That, my friends, is my kool-aid induced summation of this argument!