The key thing to understand is that Marvel is CHEAP thrifty and they would rather give opportunities to obviously talented but underused directors and actors than spend a fortune on someone that everyone knows is good.
Plus they have a pre-existing relationship with Joss on Runaways and Astonishing X-Men.
A lot of what Marvel is doing is convincing people to do their films for less (and signing them to multiple film deals) because being in a "cool" comic-book movie that makes a ton of dough will help their careers.
This was pretty strange. Throughout the entire run of this show, they have hardly ever dealt with any of the characters in a intimate way, be it relationships, homelife, personal problems, etc. They have always simply focused on them doing their jobs.