There is no system that will put the two best teams in the championship consistently. Whether seeding and bracketing by region, half state, or statewide, there's no way to ensure that the two best teams meet in the championship. Currently, the seeding is based on VHSL power points, but how accurate are they? They're better than some nonsense coaches' or media poll, but they aren't perfect. Plus, the system can be gamed to a certain degree by coaches and ADs.
I personally would like to see a return to automatic qualifiers for district champs. Win your district, win your region, make it to state. If the second best team in the state happens to be in the same district as the best team in the state, that's a tough break. It won't and shouldn't happen now because our districts are such a mess. Gunz is right about an expanded field of playoff teams. That's something we can all agree has been good for the game.
I certainly don't see it being good now with district champion being an automatic qualifier. You have districts with 3 classes between them. And then you do have districts in the state that just aren't good. If i remember correctly, 1st it was 4 per region, then it went to 6 and 8. When it was 6 and 8, the district winners were the higher seeded teams. And the game i am remembering of 9-1 Not making it was Harrisonburg-Lee. Both came in at 9-0 Harrisonburg was AA Div 4 and Robert E Lee was AA Div 3. Harrisonburg won the game, and because Lee lost that last game (if I remember correctly it was a tight game, Harrisonburg went deep or won state) and didn't win district, they were sitting at home, when teams that weren't nearly as good were dancing.
No there is no perfect system, and you may not have 2 best teams play every year, but with the last system you had a better chance of it. If the top 2 teams were both East, they still had chance to play each other with cross bracketing.
Remember it's STATE champion, not where you live in state champion. Not meant to offend anyone, but look at it this way. Everyone is on the Riverheads best team train, and maybe Riverheads is MUCH better than my Cougars, but either game last 2 years could have gone either way. For sake of argument, say the 4 best teams in the state are Riverheads, William Campbell, AltaVista, and Sussex Central. 1st game vs Altavista (Win that game 21-14), 2nd game vs William Cambell (win that game 24-21), 3rd game semifinal vs Sussex Central ( win that game 28-27), then plays George Wythe in championship game and wind 56-7. It would seem to me that any of the 1st 3 opponents deserved to be in championship more. My point is the last system we had before this one gave teams who would deserve it the opportunity more, not just where you live or which region you are placed in.
Again, this isn't to say that those are the best teams, that would be the scores and opponents, and those are the deserving teams and nobody else deserves it, just in my opinion the quality of team and resume and results should determine everything, not just where you live.