This thread is amazing.
I watched the bootleg, and I really don't see this "angry" Bono you speak of. He looks perfectly normal to me. The problem that occured at the beginning and throughout the song looks like it was just a simple communication error, nothing to do with the click tracks or anything. Zootomic was just about right on the money. This is the way I see it:
Adam fucks up the beginning (after the first four notes are played, he slides down to the wrong fret). Bono says "hold it there" and Larry nods, indicating to Adam that they should play that opening riff one more time to get it right (you can see him say "one more" a couple of times). Edge doesn't seem to know about this, though, and he comes in when they normally would. At that point, Larry and Adam have to make adjustments to ensure that they don't mess up the structure of the intro. Despite this, it looks like they all get even more confused. So Adam and Bono mosey on over to Edge to straighten everything out. Edge looks to Adam and asks "one more?" and gets his signals mixed up, yet again. As a result, he misses the chord change, thinking they were going to play that bit again, and has to quickly correct himself (hence the audio appearing "out of sync"). So now Edge is probably worried, thinking he's fucked up the song...and ultimately ends up hitting the wrong key, prompting the shake of the head from Bono. But Bono, in no shape or form, appears angry at The Edge. A little annoyed, maybe, but it was mostly Bono's fault in the first place for screwing up the band! And besides, it was probably more like the "razzing" that Zootomic mentioned. The next mistake that came wasn't Edge's fault either. Edge, Larry, and Bono were at the right part before the chorus, but Adam was playing the wrong bass line again - the chorus line. So then Edge must have thought he was wrong, and started playing the chorus riff. Which was, of course, completely off. So Bono gives the count in, and they go into the chorus. By then, everyone's way off and they know it. Edge even messes up again. But after that everything gets sorted out (unless you exclude Bono's excited mic-clapping that causes him to miss the first part of the last chorus).
So, to make a long story short, Bono and Adam were the ones that messed it up the most, and Edge just got confused with the two of them. Bono didn't look like he was going to have a hissy fit and explode at The Edge - he was just behaving like ANY musician does when he/she knows a song isn't going well.
Case closed!
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