Post Captain America: Winter Soldier employment opportunities for unemployed agents.
Being an agent of S.H.I.E.L.D. is cool. There’s nifty gadgets like the night-night gun and investigation tools that CSI divisions would kill for (and might have, I suppose. If anyone can hide a clue, it has to be the guys who know what to look for). There’s transportation, like the Bus, the Helicarrier and Lola. You get to travel around the world, and you could get clearance to know all kinds of nifty stuff. As an agent, S.H.I.E.L.D. is the employer of your dreams.
So what happens once they’re gone? What’s next? What options could there possibly be for someone whose resumè is top secret? What’s to become of the numerous ex-agents of S.H.I.E.L.D.? Let's see if we can't drum up some options, and see which ones pop up in the future in Agents of S.H.I.E.L.D. and Marvel movies. Now, I'm guessing CIA and the Secret Service will be stumbling over each other to recruit their share of the former S.H.I.E.L.D. employees. But there's also the private sector to consider, and there's some big hitters out there with a potentially very good sales pitch.
S.H.I.E.L.D. used to do a lot of cleanup. The Invasion of alien beings in Thor 2, Loki and the Chitauri in the Avengers, Bruce Banner could probably Hulk out on us at any moment. Somebody needs to fill the vacuum left by S.H.I.E.L.D.s dissolution before that happens. Say a couple of guys from S.H.I.E.L.D.s engineering division comes together for a beer with some of the people from accounting. Suddenly there’s a business plan forming, and voilà, we have Damage Control, a company specializing in cleaning up the big messes left behind whenever a superpowered being lashes out at the world around him. It’s not inexpensive, but a lot of people (and probably entire states) must have bought the insurance plan that included acts of God after the Asgardians first made his existence known.
Mercenary work isn’t as glorious, and there’s a severe lack of gadgets, but tactical work is tactical work, whether it’s for hire or a more permanent thing. Maybe Silver Sable and her Wolf Pack. Maybe Taskmaster needs a crew for a, at least on paper, legitimate job? And there's no reason why there shouldn't be new groups forming. It's an expanding universe after all.
From my point of view, Hydra has been a part of S.H.I.E.L.D. since its birth sometime 60 years ago. This means that apart from this one incident in Captain America: Winter Soldier, they've done a pretty decent job of protecting the world. We shouldn't judge an organization on account of a few bad apples? In the Marvel Universe, Hydra might just be a viable option even for the clean, decent former agents of S.H.I.E.L.D. After all, they've been working for them for a good long while already. S.H.I.E.L.D. scientists might also be tempted to delve into the hows of Centerpede technology, and/or the Deathlok project
With S.H.I.E.L.D. down, the scientists needs a place to go. Stark Industries will take a few, FBI and CIA will recruit a few, but some might be tempted to the “no limits” clause AIM might offer.
Project T.A.H.I.T.I. might be destroyed, but it was also deserted apart from two security guys. Hydra probably wasn't involved in it since the Clairvoyant was so interested, but somebody's behind it, and they have some covert connection to S.H.I.E.L.D. and thus possibly its now former employees. If they ever set up shop anywhere else, they'll need manpower, and this seems like a good time to recruit.
Agent Caulson and his team will probably keep going. If old S.H.I.E.L.D. is down and out, then maybe it's time to found a new one?
EDIT: The poll was missing an alternative for Damage Control. That's been fixed now.