I have always appreciated a simple approach to the tournament
1. A team must have 4 wins to qualify (only two results of a game are possible). You know what you have to do.
2. The playoffs would start the same week of our second round of the sections in order to get the pairings together based on the teams that qualified (the classes may not be equal, but refer to rule 1)
3. ADs would adjust their schedules accordingly. It may take a couple of years, but the schedules will work out.
4. The issue would be teams that get their sixth loss may tank games. You would hope that wouldn't happen, but that is the reality of any situation.