When the spy gang attempts to catch Shaw they end up finding Ellie. Chuck has to clue her in to some parts of his CIA job. There's running and arguing and stuff and then Shaw shoots Papa Bartowski in the heart right in front of Chuck (and a hiding Ellie) and he uses his superior evilness to make the heads of the CIA and NSA believe that he's, like, the main good guy in all the land. That allows him to legally kidnap Casey, Sarah, Chuck and General Beckman and the only person who knows about it is Ellie. She calls Awesome, as any sane person would in an emergency, who in turn calls Morgan (again, as I myself would in this situation) and the junior spy duo springs into action.
Ellie follows the paddy wagon until the boys can swoop in and take over. They haul ass in Casey's Crown Vic and when they find the wagon, it's pulled over and Shaw is attempting to force our spys to escape so that he can shoot them in the back and still look like a hero. Awesome and Morgan unwittingly hit secret buttons in the Crown Vic which send a missile into the wagon, temporarily disabling Shaw so that they can run in and get the good guys out.
From there we get flashbacks (guess who's had an intersect in his head since he was 11?), disguises, accents, plans, some petty squabbling, a promise to quit the biz and a "mwa ha ha" from Chuck that tickled me to my core. Chuck gets the Governor and the good guys prevail. Morgan dials his phone with his nose and tongue, breaks his thumbs and accidentally blows up the Buy More (good riddance, I say!). And Chuck tells Ellie he means to keep his promise about quitting the spy trade because she told him to. I kind of wanted to smack Ellie for that, but whatevs.
Oh yeah, and this happens, but I really don't want to talk about it.
A truly great season finale. Can't wait for the fourth season. Thank you, NBC, for doing the right thing by this show.