Someone, (not me,) posted a video of this concert on youtube. It's during Stinkfist and you can see Maynard come down and grab the CD and basically make out what he says to the crowd. With the exception of the fact that he stops singing for the 2nd verse it's also a pretty decent jam of Stinkfist.
http://www.youtube.com/watch?v=MXSxpWhj4Qg
it's worth checking out.
Also wanted to mention that I enjoyed watching Maynard and the singer from Melt Banana play cards during Lateralus. Added a bit of humor to a tense show.