I’m going with WarMachine and Nick Fury.
War Machine, because this storyline happens around the time Iron Man 2 will be in theatres, and in the comics Rhodes is fresh in a new body and ready to go. And with SIEGE out of the way, Nick Fury is ready to get back into the spotlight a bit. Granted he’s got his own comic, but he’s best in a team comic. He isnt bankable enough to run his own show, sales wise. But leading an espionage Avengers team? Done.
The obvious answer seems to be Steve Rogers as the head of this group, but I still maintain he’ll be running SHIELD.