Marvel's The Avengers Prelude: Fury's Big Week

It starts off seeing The Destroyer after Thor. It is taken away by Phil Coulson and S.H.I.E.L.D., and a year later (around the time Captain America is found), Coulson checks in with the research team to find that they can actually control the Destroyer. The level of control they have isnt specified, whether they can just turn it on or actually choose its targets. Coulson tells the scientist he wants them to "Dismantle the thing and make it about a hundred times smaller...And put a trigger on it!"

The Leader is also shown in the series. After we see him mutating on the floor in The Incredible Hulk, Black Widow shows up and organises a team to seize all of the property. The Leader begins to give a speech about he will take over the world, at which point Romanoff shoots him in the leg. He is taken into custody by S.H.I.E.L.D..

Black Widow is sent to run interference by Fury at Culver University but ultimately fails and Banner is taken in by General Ross. It is at this point we see Fury looks at Ross as more of an enemy and goes to speak to him about his actions.