I'd like to see objectively calculable standards used.
While I think it'd be great to see a double octafinal bracket played, let's be a little more serious (oh noes, a long post season!).
I'd break to quarterfinals, with the 6 AQ conference champions in berths. The remaining two places are apportioned to the highest score in wins weighted by opponent wins (ie, 1 x opponent win percentage) Heck, we could even do a modified weight along something of the lines of (10 - SUM(1 x opponent win percentage))/10 to punish you more for losing to easy teams and less for losing to good teams.
That's an imperfect standard, but it does disincentivise playing miss martha's kindergarten 3 games a year. It also has the advantage of excluding horse**** opinions of 'qualified' judges. The best result would be to allow more teams into the tournament and let actual football decide. In that sense, an octafinal round would be substantially better. But, you'd then need to convince people to play three more games instead of two.