Personally, I feel that Incubus is more "Bonnaroo friendly" than the White Stripes, and look how many people turned out for them this year! Though I really like their old stuff, I think they really found their sound with A Crow Left Of The Murder. Ben Kenney did wonders for this band.
Any of you who don't really care if they play or not, I suggest you check out their "Live at Red Rocks" DVD. You'll start to care.
I am not very familiar with a lot of their music -- but i do know the majority of the well known songs. I saw them a few weeks ago at the Virgin Music Festival and they put on a great show. They played all of their known songs.. there were only a few I didn't know. They played for an hour-hour and a half.. which would work well for Bonnaroo. I wouldn't want them to be a headliner though