May I suggest a rule change for this year? I think the penalty for missing the innings-pitched limit should be subtler so as to have less of an impact on the standings from week to week. This becomes more significant as the year progresses and certain managers lose interest and leave their teams on autopilot. These are the teams that miss the limit, because they have injured and/or demoted pitchers active each day.
Last year, the penalty for missing the limit was to forfeit all 20 categories--that is, the opposing team would be awarded a 20-point boost in the standings. In matchups where both teams meet the limit, a 5-point victory is usually above average. If you face a team who is on autopilot and misses the limit, you are awarded four times that. A significant margin. This issue came very close to impacting the playoff seeding last year (but ultimately did not).
The result is a sort of lottery effect. Teams that face autopilot teams early in the season, when all managers tend to be invested and paying attention, are at a disadvantage. Or at least they do not benefit from the 20-point bonus. The only way to recoup this disadvantage is to win categories like perfect game, no-hitter, and shutout--and we know how unlikely that is.
I'm not sure what options Yahoo! provides insofar as modifying this rule. The goal would be to lessen the random impact of deadbeat managers.