In "Chuck Versus the Other Guy," Shaw's plans seem to make little sense other than to pad the episode out. Then you realize; the first operation where he takes Sarah to the warehouse and she finds out that she killed his wife, this operation makes Shaw look like he can cope with working with Sarah and makes Chuck look incompetent to General Beckman. The second op further makes Shaw look like a Ring killing machine, further hiding his turn, and he just happened to film it for the benefit of the team. It also get The Ring's Intersect into the government's hands so they can check their progress for them and makes Beckman think the Director is dead. It further discredits Chuck and makes Shaw look even better, getting him alone with Sarah on a plane to Paris to hand over the government's Intersect notes and kill Sarah before he begins his life as a Ring agent. If it hadn't been for Morgan's extensive knowledge of Sonny Chiba films it might have worked.
In "Chuck Versus The Gobbler", Ellie is insistent on calling her daughter "Grunka", much to Devon's displeasure. It eventually turns out that she was using that name to trick Devon into agreeing on the name "Clara" - Grunka is actually the Swedish equivalent of "Doohickey" and "Thingamajig", or "something one does not know the name of".
One of the back-up stories in the comics is set in 2020, and features Chuck on a solo mission in Russia, held at gunpoint because Casey's timing was off, before he gets a phone call from Sarah, his loving wife and mother to his children. After Sarah's phone call, Chuck immediately starts to wipe the floor with the men holding him at gunpoint. This sequence suddenly made a lot more sense after Chuck uploaded the Intersect 2.0 at the end of Season 2, and Sarah & Chuck finally became a couple in Season 3.
Why does the Intersect 2.0 glitch out differently for Chuck & Shaw than it does for Morgan & Sarah? Well, it's revealed in Season 1 that the CIA were originally planning to recruit Chuck for his memory retention abilities. Presumably, Shaw has this same ability, but Morgan & Sarah don't. This would explain why the Intersect erases Morgan & Sarah's memories the more they use it; but when Chuck & Shaw use it, it instead fries their brains by overloading them.
In "Chuck Versus the Other Guy", Sarah tells Chuck that she fell for him "a long time ago, after you fixed my phone and before you started defusing bombs with computer viruses," both of which, incidentally, happened in the very first episode. What happened between those incidents? "Y'wanna know a secret? Real dancers are tall."
In "Chuck Versus the Ring" it is stated by Orion that architecture of the Intersect has been altered from it's original design, which goes contrary to "Chuck Versus the Goodbye," where it is revealed the only way to change the Intersect's functions is with "the Key" - a device split into three parts & divided between Ted Rourke, Hartley Winterbottom & Stephen Bartowski. Now, remember that the Intersect 2.0 is faulty & will fry Chuck's brain without the Governor to regulate it, and that Season 5 features the Intersect erasing Morgan & Sarah's brains the more they use it & it's stated that Quinn needs to Key to remove these glitches, which weren't in the original Intersect that Chuck uploaded - the glitches didn't exist until the Intersect was forcibly changed without the use of the Key.
In Season 5 Episode 1 "Chuck Versus the Zoom", Sarah tells Chuck that since she was a little girl, her dream home was a little white house with a red door and a picket fence. 7 episodes later, in "Chuck Versus the Baby", in some blink-and-you-miss-it scenes, we see that that description exactly matches Sarah's mother's house. It's brilliance in that it's more than just Sarah's dream house, it's also Sarah's dream life; a normal life that she could have had if she hadn't been caught up in her father's cons and hadn't joined the CIA, a life that she missed out on.
Chuck, Casey & Morgan all got their jobs at the Buy More back without much question in season 3, after quitting in the final episodes of the second season - or if you prefer, after Emmett had usurped Big Mike as store manager. When they get their jobs back, it simply looks like they've agreed to come back now that Big Mike's back in charge & that they only quit because they hated Emmett so much.
"Chuck vs. The Cougars" flashes back to Sarah/Jenny finishing up high school. She's portrayed as socially awkward to the point where she has no friends that she's eager to reconnect with at all, a complete outsider, and although not "ugly", it's obvious she has not yet mastered the arts of hairdressing, makeup, fashion and other things that enable her super-attractive appearance in the show. No ex-boyfriend was so much as mentioned either in the flashback scenes or at the reunion. Taking the above, and adding the fact that Graham recruited her for the CIA directly out of high school, it begs some disturbing questions about Sarah's sexual awakening and sex life before the pilot episode. Did the CIA teach her everything she knows about attractiveness and seduction? Was her first sexual experience a villain that she had to seduce in the line of duty? Has her entire love/sex life before the pilot consisted of fellow agents and marks? Is Chuck the only man in her life that wasn't either a mark or a fellow career spy like Bryce or Shaw?
Similarly, the plots of vs The Crown Vic, vs The Seduction, The Beefcake and The Three Words establish that in the Chuck Universe, both male and female spies are well trained to seduce men and women for the good of the mission — even to the point of establishing a long-term relationship with them and getting the mark to marry you! An attractive female agent, it seems, is automatically signing up to be used as sexual bait- perhaps for the long term.
Agent X's mother said that Chuck reminded her of her son. However, once you realize that the "son" she was referring to was Alexei Volkoff, it takes on a whole new meaning.
Except Agent X was, basically, a shy geek, must like Chuck himself, before being imprinted with the Volkoff personality.
Recent episodes' B-plot, with Jeff being cured of his idiocy, and Lester trying to re-inflict it, make Lester look less like a Jerkass and more like a monster.
Well, Lester did go to jail as a result of one of his attempts to return Jeff to his previous state, to be fair.
The CIA continued researching the Intersect technology afterHartley Winterbottom had become convinced that he really was Alexi Volkoff because of the Intersect. On top of that, we have Chuck, Orion & Shaw requiring a device to stop the Intersect from frying their brains, and Morgan & Sarah losing memories from continued Flashing. Just how many people had their lives ruined by the Intersect before Bryce sent it to Chuck in the pilot, and why did the CIA continue researching it when it was clearly dangerous & the cons arguably outweighed the pros of upoloading it?
In "Chuck Versus The Bullet Train," it's pretty obvious that Chuck and Sarah are trying to conceive. When you think about this in the context of Sarah's memory loss later that episode, and what happens in "Chuck Versus Sarah" and "Chuck Versus The Good-bye," an extremely disturbing possibility starts to emerge. What if they succeeded and Sarah was actually pregnant for the events of the last two episodes? Would she have realized it that early? Without having any memory of her time with Chuck or their decision to leave the spy life, she might well have aborted a child the two of them had actually wanted. Either way, she could have found herself pregnant with no memory of what had happened or who the father was. Nightmare. This troper thinks the final episode was pretty dark, and this would make it darker still.
The CIA covered Emmett's death up by saying he'd got a new job at a better location. No-one, not even his family, knows he was murdered in the Buy More loading bay.
Fridge Logic and/or Fridge Horror: In the first season, Bryce is vilified for getting Chuck kicked out of Stanford. However, Chuck forgives him because he finds out that Bryce did it to protect him from being inducted in the world of ruthless, cold superspies. The audience is also meant to see this as a moment of redemption for Bryce. However, Bryce sent him the Intersect, thereby dragging him into the world of ruthless of superspies anyway. Since it happened either way, couldn't Bryce have let him finish college?
Even worse, as of Season 3, Chuck wants to be a spy and enjoys it. This means that Bryce was wrong to try and shelter him from being forced into the spy world. Meaning that Bryce should have left him to finish college and make the decision for himself. Basically, Bryce Larkin is a tool who ruined several years of Chuck's life, and no-one ever picks up on it.
Even worse than that, is that he tells Chuck that he brought it on himself. Kind of a jerk move to say to someone, who you KNOW did NOT bring it on themselves. And could he not have... just told the professor to lie? Instead of getting Chuck kicked out of school, where he'd have a poor chance of ever fulfilling his dreams?
It's not as cut and dry as that, though. During college Chuck was being set up to become a real spy, through actual spy training, which would of resulted in him becoming a real spy, which Bryce didn't want. Later, though, he needed someone he could trust with the intersect, someone who could handle it, and that was Chuck. Along with the fact that in that situation he would not be thrust into the spy world in the wrong way, he would be helping people as Chuck, not someone like Casey. And when Chuck finally does decide to become a spy, it's his own choice, not the governments.
In the final episode couldn't they have just left an iPod and a speaker playing next to the bomb till the bomb squad arrived?
And deny Jeffster one final performance? Besides, the bomb was responding to a full orchestra level of sound. I don't think an iPod by itself would have been nearly loud enough.