Didn't feel like the usual Chuck story because of that but then again maybe we'll be looking back at this episode as the one that was the turning point of the season. One that sets it all up for a very long run on TV.
The one thing this episode relied on was that Chuck's intercept didn't know everything (allowing the evil agents to infiltrate the Buy More without Chuck "flashing" on them). It the start of the end for the show unless they find a way to "top" up the information Chuck is holding.
Anyway, the basic story line was Bryce comes back, he and Sarah connect, he and Chuck connect (and talk Klingon). Chuck turns out to be a good guy and the bad guys are after him. They defeat the bad guys and Bryce disappears into the sunset whilst the episode ends with Sarah left having to make a choice.