I was generalizing a bit, and I don't think all organized atheist groups are bad people, of course. My intention was to counter Bombadil's assertion that it was up to ME to stop calling myself an atheist if I wanted to be seen as separate from people like the guy in the OP video and the raving lunatics in the r/atheism crowd. They're atheists and so am I, but some of them are assholes and I'd like to think that I am not.
I agree that the prevalence of misogyny, transphobia, and hylerbolic anti-religious sentiment are all regrettable, and issues that need go be adddessed for nonbelievers like me to be taken seriously.