Billy Kaplan's original superhero name, "The Asgardian," makes sense in light of Norse Mythology, where the type of magic practiced by Odin, known as Seiğr, was infamous for its connotations with homosexuality and feminity. Loki once taunted Odin for practicing it, essentially calling him a "girly-man." As a Norse mythology geek, Billy was most likely aware of this and therefore used his nickname as a way to take pride in his sexual orientation!
Related to this, the fact that Loki apparently has no problem with Billy and Teddy being gay seems odd until you remember that, as a magic-user, he was likely assumed to be/accused of being gay himself, and doesn't see it as a bad thing.
Plus He once turned into a female horse and had sex with a male horse giving birth to Sleipnir
Prodigy's status as an outsider, unaccounted for in Loki's plans, means that the former X-Man is now a literal X-Factor.
Issue 6 of the 2013 run confirms that Tommy has sped up time perception like Pietro. It's stated that in juvie he was experimented on. Imagine how that would be for someone who feels five minutes as a week.
This same thought applies to whatever it is that Fake Patriot has done to him, or wherever he's been taken.