It looks like Marvel are already working on their next movie tie in for Agents of S.H.I.E.L.D. It seems that Skye is new person. Maybe person isn't the right word. She is an "Inhuman." Coulson's S.H.I.E.L.D. team doesn't know anything about that specific corner of Marvel lore, and it's going to be something that is unraveled as the show progresses. One thing is clear. This is going to tie-in directly to the Inhuman movie that Marvel announced a few months ago.
It seems like Skye might be paired with Fitz to try to figure out what happened to her. Chances are he is trying to analyze the science behind her changes, but if that's the case they also will be able to relate about the ways traumatic events in the line of duty have affected them. Alien science doesn't appear to be anything new to anybody on the show, at this point.
What is next for the team? Who knows. Check out the premiere trailer below.