Well until the NCAA changes its mind, the BCS is here to stay.
As for the rankings, I really don't see too much of a problem with some of what people are griping about. The media loves Boise State so much that they aren't really the underdogs anymore. That's reflected in the polls. There are also some teams that get passes when they should be ranked lower. That's where the prestige comes in, especially for Ohio State IRL.