I've dictated all the main notes I had to your first draft in PMs. I think everything is pretty solid, including the backstory you've added. In terms of selecting a vice, I suppose I'll try and elaborate on that a bit. The Vice is meant to be something of an idea which points out the deepest flaw in your character that will essentially let them walk the line between the dark and light sides of the coin.
Diana has 'anarchy' listed as hers because I imagine she will have to be closely monitored lest the operation may start to take precedence over order and societal standards that other rely on. She'll essentially gravitate towards chaos unless stopped even if that prompts danger for the team or civilians. (But more on that as the story progresses).
For your Vices, I encourage you to pick a sort of flaw that is less of a physical thing and more of an ideological concern that is deeply rooted in their psyche. Your Vice, then, is in essence the evil portion of your personality. I can't think of any specific ideas for your character, though I encourage you to come up with a few ideas of your own and then just continue narrowing it down until you find the one that you'd like to play most.
VIRTUE: HONOR - In spite of his inability to be sensitive nor handle social situations with a great deal of care, Jonah is the very model of what it means to be an honorable man. Jonah will not be swayed by any means to negotiate doing morally ambiguous actions for the 'greater good' nor does he take part in lying to his close friends or family. Throughout crises or difficult situations, he will always maintain his moral compass, no matter the cost. He ultimately believes in doing the right thing no matter what and believes in treating his friends as well as his enemies fairly in return. Jonah can always be counted on to be the first man who acts as a check to those who would propose solutions that would be deemed....questionable.
It's always good to have a paladin in the group to stop them from going straight to the morally depraved, villainous route.
Of course, I'm already thinking of ways Diana is going to mess with his head.
I really like the character concept here. It's really unique with the nature of Jonah's physical disabilities, so I'll be interested to see how this sort of 'Enforcer' differs from the usual GI guy who punches people on spy mission. Overall, everything seems solid. I can't seem to point out any real flaws at the moment.
Perhaps if you're looking to make some edits, you could mess around with skills and flaws. At the moment, it seems like most all of your skills and flaws are fighting related, and we aren't always going to be throwing hand as much as some of us may want to.