It's unclear to me what the best course of action for him actually was, given the Streisand effect. I tend toward thinking that taking down the blog was an emotional outburst at the NYT not respecting his request, and that he could have probably gotten a good outcome, both for his community and real career, if he accepted the press and maybe tried to negotiate the use of his real name down to a single instance, e.g. Scott Alexander, born Scott Alexander Scott. But I see it more as a fit of pique than anything else, not an intentioned effort to cause an internet freakout.