There have already been changes made to the game to address many of the issues that lead to "super" teams.
However, none of these will be immediately noticeable unless you join a new league created after version 0.4 was released.
A couple of those items are:
Good players demanding higher salaries.Players getting unhappy with you and refusing to re-sign if they aren't getting playing time.The other item that seems to be complained about is trades. Some feel good teams shouldn't be allowed to acquire a 1st round pick in a trade, which also means an owner is not allowed to trade away a 1st round pick if his trade partner is too good already.
Aside from adjusting how the trade meter evaluates players, I think the trades work fine. I don't see a need to put further restrictions on trades.
I'm sure some of my teams would be considered "super" teams. The only things I have done are draft, trade, sign FAs and gameplan. I have done absolutely nothing that couldn't be done by any other owner. I have made a lot of trades, some of which I now regret, others that worked out well for me. As far as I can recall, I have only been accused of benefiting from a lopsided trade once, and I took the time to explain why I felt it wasn't lopsided (a weighting issue).
If changes are made to artificially limit my ability to build the best team I can, I will leave MFN very quickly.
I'm talking about changes such as:
you can only have X amount of 1st round picks you can only have X amount of players rated over 80 on your roster you can only make trades up to a certain value each year etc.