I don't follow football all that closely, but it seems to be that Goodell is taking over at a very good time. The NFL is a superbly run business, especially in comparison to Major League Baseball, having handled such difficult issues as labor relations, revenue sharing, salary caps, drug testing and stadium construction with what certainly looks like a high degree of success. Not to mention that revenues from television, ticket sales and merchandising are all very strong.
As for the main issues Goodell's likely to face, I see two:
1) Better pensions for retired players, especially for those active prior to the big-money era.
2) Growing evidence that increasingly large linemen are facing more and more size-related health problems.
Any other thoughts?