This totally happened, y'all can stop +1ing this now. GitHub Blog post. Direct link to settings where you can set this.
#Per-organization / per-repo email overrides - A feature suggestion
Here the concepts "organization" and "user" are interchangeable, I'm talking about an entity that owns a repo, whether it is jQuery or John Resig. I'll stick to using organization as it best represents my original use-case.
##TL;DR