1) I know Alabama hasn't played the strongest of schedules, but they just maul teams. Tennessee played Georgia and South Carolina tightly, Bama destroyed them. Mississippi State was undefeated (against an admittedly light schedule), Bama destroyed them. Michigan with Denard played ND tough, Bama destroyed them (I realize Michigan didn't actually try to win that game by limiting QB runs.) We'll know for certain after Saturday night against LSU.
2) I think Notre Dame has a very similar resume to K State, but the Irish are getting bonus points for the more dominating performance against OU and for having a firmer bottom of the schedule. Oregon's schedule remains the joke of all jokes, and they better hope Oregon State, Stanford and USC remain solid outside of their games with the Ducks, otherwise their chances for a marquee win become zip.
3) I know that Florida just lost to Georgia on a neutral field and you're probably right to say that alone should decide the order, but when you look at their best wins (Florida: vs. LSU, vs. South Carolina, @A&M; UGA: vs. UF, ...@Mizzou? vs. Rocky Top?), there are just too many data points in favor of the Gators having a stronger season overall.
4) The rest of the ballot is really a mess. I honestly ran out of teams after about 18 or so, then did some research. If you have any strong feelings after about the top twelve, please share them and we can revise.