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I thinks a lot had to do with coaching. Ross Jackson talked about it some last season and even more after the hired Moore this year. He said Kubiak didn't have a second punch and they didn't make adjustments well during the game. He said Kubiak was asked at one point about play calling and he said they we are gone to do what we do basically no matter what the other team does. So if the team was good at the stopping the run to them we are stilling going to run due to that is what we do best. Ross said that is just the opposite for Moore and we saw that with Sean as well. Moore said it will be a week to week thing. He said in the introductory press conference it doesn't matter if they throw 50 times or run 50 times they will do what is best to win the game.
Yeah, IMO that is the fatal flaw of the Shanahan/Kubiak system. If you run into a team that can stop your run game, you are in trouble.