When I was playing through Venus and got to the mission where we need to find the Awoken to get to the Garden, my Character (who is Awoken as well) didn't think for a second she might be seeing more of her kind (if there weren't that many on the Tower).
Heck, it might even be the same for the other races.
What I was thinking, was that maybe they could have fleshed out the character (even if it is just some pawn) more or just gave the characters dialogue unique to their races.
Example (From the first Venus mission):
Ghost: "Bla bla bla find Awoken bla bla Rift bla bla"
Awoken: "You mean more people like me?"
Ghost: "Bla bla bla find Awoken bla bla Rift bla bla"
Human: "The Blue guys? I've always wondered where they come from."
Ghost: "Bla bla bla find Awoken bla bla Rift bla bla"
Exo: "More of them? Beep boop, count me in!"
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I think Bungie did actually cover this loophole. You see Awoken who went back to Earth/fought alongside Humanity were considered Exiles and no longer welcome in The Reef. (That said: You would THINK the Queen would say SOMETHING to an exile. Like: How DARE you insult me with your presence?!)