The title of this thread really struck me, as I actually have had that sort of experience. Not with LGBT organizations, mind you, but with bullying in general.
When I was in middle school I was bullied constantly, and being the good kid I was, I went to the administration for help like we were supposed to. Repeatedly. Ultimately nothing came of it, as while a few staffers were sympathetic, those in positions of actual power just didn't want to be bothered. The principal was counting the days until retirement, while the vice principal literally didn't care about the problem. A few years later when my brother was having academic problems, those same administrators basically told my parents that they were not going to honor his IEP without a fight in court. So administrators not giving a damn about their students doesn't surprise me. "Why help students with problems when ignoring them is so much easier? Especially with middle schools: they'll be gone in two years."
Here's hoping the club succeeds.