Truth is, your theory has a large gaping hole in it and as such can only be partially useful at best. It's looking at the gas consumption of a car without including the impact of wind, grade of the road, maintanance, how much weight the car is carrying, traffic density, etc. You're choosing the few categories that you can visibly see and disregarding everything that happens on the practice field, in the study room, or the even more ephemeral intangibles that occur on the field.
You even dismiss the notion that some qbs seem to be better at finishing off games or rallying their team... stating repeatedly that they actually aren't but that the behavior is just part of their average play and we just attribute it to end of the game, but that doesn't take into account that at the end of the game when the it's on the line the qb is liklier to take greater risks, concentrate harder, etc. Play isn't a constant and neither is effort.
Your rating system which you've admitted is incomplete is incomplete and that's why I and others so strenuously disagree with you. It's why sometimes more gifted quarterbacks perform worse on the same team with the same coaches under the same game conditions. The human element does count and needs to be factored in.
And perhaps that explains why the "athlete" qb has won so many fewer championships than the pocket passer.