To be fair, though, the BCS doesn't claim to be about "merit" outside of the title game. The non-national championship games have absolutely no obligation to choose the "best" teams and they don't hide behind that.
And I do think that the BCS title game is a merit based system. Even if it splits hairs about quality of wins (Auburn's decision to replace Bowling Green with The Citadel in 2004 hurt them, especially since the Falcons dumped Auburn to play Oklahoma) it still looks to what happened on the field to determine who plays. Would a playoff be better? Absolutely. But this isn't a zero-sum situation where it's either a playoff or a non-merit based system. Both Ohio State and LSU merit a spot in the title game. As it went this season, so did Georgia and Oklahoma (not SC; you can't lose at home to Stanford and still be considered for the title).