This has been remedied.
I would add that Nate Glass, owner of Take Down Piracy, sent a heartfelt apology and has indicated that GitHub.com is now white-listed by his company.
I would imagine that TDP/industry could work with GitHub directly (as opposed to search engines like Google), and GitHub themselves would be conscious to this sort of thing themselves - it being contrary to their terms:
> We may, but have no obligation to, remove Content and Accounts containing Content that we determine in our sole discretion are unlawful, offensive, threatening, libelous, defamatory, pornographic, obscene or otherwise objectionable or violates any party's intellectual property or these Terms of Service.