I was having this issue too and for me the issue seemed to lie in the Docks: Holding Area. I reloaded to a time before I went down there and completed all side-quests on the other levels, before finally going back down and completing the side-quest there. The cause of the glitch might've been one of three things: Speaking with Zaeed, completing the side-quest "Hades Nexus: Prothean Sphere", or going down to the refugee area at all. I don't have the energy to figure out which one though (^:
Hope this helps someone, bye bye
