Not His Sled: It's implied that while a rough equivalent of the events of Final Fantasy XIII occurred, they were significantly different from canon. Also, she was apparently never pulled out of time by Etro, so the events of Final Fantasy XIII-2 haven't happened yet.
Also, her sister is a fashion designer, not a teacher.
Muggles Do It Better: Why he works with Atlas despite being a mostly-ordinary human. There's only so many Magi in the world, and most of them have a cultural taboo against relying on advanced technology. Since Atlas' mission is about preventing The End of the World as We Know It, bend the rules a little to get an edge. It helps that there isn't a Masquerade in this continuity; everyone knows the Mages' association exists, even if their inner workings remain a secret.
Enigmatic Minion: Heroic example. Is he helping the JSJ because he cares about Shirley, or does he have another purpose? If there's no Brittanian Empire in this universe, why did he form the Black Knights?
Actually Not a Vampire: After her powers awaken and her weaknesses are discovered, Zero gets Merasmus tries every test he can think of to narrow down what kind of supernatural creature she is, with "Vampire" being his first guest.