You've got three things going on: getting into the tournament under the rules, the rules to get in, and the seeding.
Under the current rules, Notre Dame shouldn't get in over Miami. You know who's fault is that Notre Dame didn't get in? Notre Dame. Win your games.
The rules to get in: Clearly flawed that would allow James Madison and Tulane get in before Notre Dame.
The seeding: Weird. Too many rematches.
Nah the rules worked. You take away the top 5 conference championships as AQ's and you will never see another G5 team in again. If you don't believe me ask why an 11-1 BYU wasn't even in the conversation. It won't matter how good the G5 team is, all the committee has to do is keep them around 15 and say SOS matters.
The problem this year was that the ACC found a way to not send its best team to the championship game.