I don't know...its the GE. One person in the swc help(Khan) said it should be doable but someone from the GE had to do something first. I didn't really understand what he meant(I am a noob). So he actually went in the empire help to talk to someone but nobody responded.
You didn't do anything wrong and there is nothing you can do about it. As Khan said, if an HQ facility is not assigned to the faction, you can't start at it. The Empire would need to fix this, not you.