Since I'm going to end up asking more questions than giving answers, I'd like to thank whatthebutlersaw, Wudang, and Sabrina for their ideas, and Darat for pointing out that at least in Britain this issue is finally getting some serious attention.
I would also like to try to reply in the spirit of LibraryLady's original request.
Often, the victim is somehow different than the majority, perceived as gay, atheist, or otherwise not the "norm."
We are a community, a community of skeptics. Is there something that we as a group can do to help alleviate this problem? If the answer is no, what should we be doing as individuals? Or is this not an issue we should deal with at all? I am open to that answer.
The problem is not always one thing or the other, it takes changing cultures to stop the behavior.
I agree that some of what is needed is further broad social change, especially with adult/official acceptance of (former) out-groups. That work takes time, however, and it's still early days.
And I hate to say it, but I think that if the JREF Forums are any guide not even "the skeptic movement" is sufficiently on-board with respect for young "nerds" and "dorks", let alone young gays, lesbians, and atheists.
However, many schools as workplaces and as government agencies already have policies and regulations against violence, abuse, and harassment between their employees. Not all do, and not all who do also adhere to them. That's one level of change which is worth making anyway. But then it's necessary to extend these standards among students
and enforce them.
Cultural change around bullying has been happening since Columbine and has grown with the recent spate of well-publicized suicides of young people, especially young LGBT people. Policy change may take even longer to be refined and widely-distributed. And it will be harder to make sure it leads to support for those minorities that even the adults hate, such as LGBT kids or atheists. This obstacle also includes parents who want to preserve their children's right to express religiously-justified bigotry.
I think that changing attitudes may be just as much a product of skeptics' and freethinkers' society-wide visibility and respect efforts, as they will be from specific policy-based campaigns before boards of education and school districts.
Here's one place to start: Do you all know the bullying and harassment policies of your local schools? Do you know if they are followed? Do you know how to force the adults there to follow them? Finding out what the current expectations are is necessary before expanding them.
Also, it may be necessary to understand the opposition. What board members, staff, and parents support violence and abusive behavior in school? What justifications do they use? Which of these people are likely to oppose attempts to curtail abuse? What kind of power do they have in the community? The treatment of Constance McMillen by so-called adults provides a glimpse of the kind of mentality in some communities.
Talk to the educators who are already with you on this. What tools do they need that they don't currently have to address bullying and abuse? What kinds of public and institutional support will they need to do this job?
Meanwhile, does anyone know if gay-straight alliances mitigate gay-bashing in the high schools that have them? If so, how does that happen? Is the experience of such groups something from which organized skeptics can learn, if we want to protect "our" kids? How do we protect more than just the geek kids and nerdlings? I mean, all students should actually be safe enough to absorb their lessons.
That's a lot of questions, but maybe it's food for thought.