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I don't know how to colour it in.

Yeah the Doctrinate aren't gonna be too keen on all consuming empires of finite exploitation. We'll be friendly to other humans because their humans but a lot of the other species are also cool. As long a they're open to the Godhead's ideas. 

I'd say the Doctrinate would know of other empires, but more from intercepted communications, nuclear signatures and observational evidence. The closer the better though.