Hi Lori,
I actually read something recently that suggested yeast could be an alternative cause of pouchitis. I was also reading that a strong pro-biotic can help but might not be enough to knock it out so adding an anti-fungal like oregano oil might be useful. I just started VSL-3 a few weeks ago myself and am still having discomfort (trapped gas, feels like my pouch won't empty, increased frequency, watery stools, occasional nausea) so I'm thinking of tossing an anti-fungal in the mix as well.
Sorry for your doctor's lame response. I've been pretty irritated with my post-op care, personally, and don't feel like my surgeon takes my concerns seriously enough or really understands my sense of urgency about this stuff. I even called to bump up my first annual check-up, which I expected to be a scope, and when I got there it was just a finger exam even though I consistently requested a scope appointment every time I spoke to his office. Maybe it wouldn't have shown anything after all, or maybe it would have helped save me the last several months of misery by offering some concrete insight > I hope you feel better soon!