So here is a solution that would give EVERY 1- A team a chance to win the 1 - A championship. And would still allow the money grubbing sleeze buckets that run the Bowl games and are trying to block a true national championship, to be involved.
While there are about 117 1 - A Schools, there are only 11 Conferences and 6 independents.
The winners of the 11 conferences and the best independent team qualify for the tournament, making a 12 team tournament.
The tournament would consist of four rounds. A similar ranking system to the BCS could be used to determine which of the Indies qualifies and how the 12 teams rank compared to each other. This way, the computer system is only being used to seed the teams, and to pick which of the 6 indies is the best. While one might complain about how the the teams get seeded, the rankings won't be used to keep somebody out. (yeah, the indies could get screwed if there are two great teams, but we are only talking 6 team in total, and that's what they get for not joining a conference)
The top 4 teams would get a bye in the first round while the lowest 8 ranked teams would play. These games could be played a week before Christmas at neutral sights during the week in primetime television so they wouldn't be going up against the NFL. (would help keep everybody happy)
The second round would then be played around a Christmas... also in prime time on nights not to conflict with the NFL. The major bowls could alternate which get which and rotate them every year to be fair to all..
The winners would advance to Bowl games on New Years day... with one game being in the late afternoon and another in the evening...
A week later, you could have the championship game.
This type of system would have a lot going for it...
First and most important... the champion would be a champion regardless of their record. As Imran pointed out, why should a team that plays in a strong conference be screwed. If you are your conference champion, you deserve and will get a shot at the national title. Any team that didn't win their own conference can't really whine that they deserved a chance at the National Championship. This would keep the regular season being REALLY meaningful and give EVERY 1 - A school a shot at the prize.
Second... MORE money for everybody... which means that there would be hope that this could actually work.
The Big Bowl people would still be involved, and while they might not like that their games wouldn't be on New Years day, they will take the money instead of risking lossing it all to a different system.
There would still be many good teams left for lesser bowls so that late morning and early afternoon games on New Years Day can be scheduled... giving fans their traditional football fix and deserving teams that didn't make the tournament there bowl bids on this high visibility day. Plus other meaningless bowl games can be scheduled as they are now long before the holidays so that many teams can still get bowl bids and still get their share of money.
And Notre Dame fans would probably be thrilled, because they would probably be the Indy Representative every year, and this would make the Networks happy as well
The only real negative is that this would add a few more games to the year for the best teams...