I've seen/heard of leagues where the team that has the better record getting spotted a few points (5 or so) -- that does seem like a reasonable way of doing it, but I can't really think of another way.
Another possibility is, and this is kind of out there, is to allow the winning team to chooise an additional "FLEX" spot for the game that both players can have. so he can add a K/DEF flex, or a QB/RB. QB/WR flex (or whatever) that suits his bench better than the bench of his opponent. or can choose not to add such a flex. make sense?
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Many posters could benefit from this