Krusty the Clown begins another episode of his show on a serious note – he thanks the children for their contributions to a food drive. However, the cans and boxes of food sent in by fans of the show are not being used to feed needy families, but as part of a super-sloppy obstacle course competition (a la Double Dare). Bart and Lisa, as usual, revel in the mayhem and Krusty's abuse of Sideshow Mel.
He enters the nearby room where the other inmates were laughing at the inane antics of Krusty. After the other inmates remind Sideshow Bob he used to be Krusty's sidekick, the embittered ex-TV star begins to defame other 'trash TV' shows, all of which he pans as pointless, mindless drivel, until Rupert Murdoch steps in to end Bob's attack on TV claiming "I own 60% of that network!", which is presumably the Fox network. While on work duty at a local airfield (which is being cleaned for an annual air show), the quality of television programming eats at Bob's mind, and he forms a plan.
Meanwhile, everyone in town (including the Simpson family) goes to the air show, where the usual antics occur. At the same time, Bob – impersonating an Air Force colonel – gains access into the restricted area of a hangar, where he finds a 10-megaton nuclear weapon.
Col. Hapablap tries to begin the show, but the signal on a giant-screen television is lost and just as quickly restored on Sideshow Bob. Bob suggests life would be better without television, and then threatens to detonate the nuclear bomb unless Springfield gives into his demand to shut down all television broadcasts. Bob also points out he knows irony of appearing on TV in order to decry it. Everyone flees the airfield in panic (Squeaky Voiced Teen: "Stamp your hand for reentry!" but everyone ignores him); Bart and Lisa are separated from their parents.
While National Guardsmen frantically search the base for Sideshow Bob, Mayor Quimby and Col. Hapablap meet to decide what to do. When Bob is nowhere to be found, Quimby (out of options and running out of time) decides to give in to Bob's ultimatum, despite Krusty's (self-interest motivated) insistence that in a world without television, "the survivors would envy the dead!". Television transmitters are destroyed, and television stations hastily plan farewell programs. Kent Brockman gives a farewell speech, toasting all the good times he's shared with viewers, such as premium ice cream price wars.
As Bob (whom, we learn, was televising his demands from a stolen Duff Blimp) gleefully celebrates the success of his plan (but also rues the fact that he didn't make more demands, including one for some "decent local marmalade"), Krusty is determined not to give in to his former co-star's demands (if he can stay on the air, he'd have 100% of the audience). He takes refuge in a civil defense shed and, after turning on the transmitter, heavily improvises a show including The Stingy and Battery Show. Bob finds out and is outraged - even the threat of nuclear destruction is no match for television.
Bart and Lisa find their way into the cockpit of the Duff Blimp, where Bob – having lost his patience – tries to detonate the bomb. However, the bomb is a dud and no damage is done.
Bob, outraged that the nuclear bomb didn't destroy Springfield, takes Bart hostage and, after landing the blimp, puts a knife against his neck. Lisa manages to sneak away and creates a message announcing Bob's whereabouts. When Chief Wiggum tries to arrest Bob, Bob just laughs at him and takes his 10-year-old hostage to a hangar, where he attempts to steal a Harrier Jet (which the Air Force intended to use for a war the next day), but ends up crashing it in a ditch shortly after the start point, to which Bob then steals the original Wright Brothers aircraft (which had been an exhibit at the air show), with the commanding officer is upset as "the Smithsonian's going to hand [the Colonel's] ass on a platter" as a result. Just then, two Air Force F-14s take off to intercept bob. However they overshoot the Wright Brothers' plane and the pilots suggest they get out and walk.
Bob, holding the knife's blade to Bart's neck, plans a kamikaze mission by crashing the plane into the civil defense shed where Krusty is hiding. He flies towards Krusty's shed, humorously yelling "DIE KRUSTY DIE!!". However, the plane is mechanically unable to carry out Bob's kamikaze mission, and it merely bounces harmlessly off the shack's roof. The plane lands and stalls, and authorities quickly tackle Bob and take him into custody. As Bob bemoans his failed plan (and how clichéd the ending was), an unharmed Bart is reunited with his parents.
However, all is not well. Just as Bob is being arrested, an air-force operative accidentally drives a tank over the Wright Brothers plane, crushing it to bits (which is perhaps to be expected, as tanks aren't usually driven in the Air Force). After Bob got hauled away back to jail, Grampa appears on his motorcycle, and then told everyone that he is going to "haul ass to Lollapalooza." This made the Simpsons exclaimed "Here we go again" while Marge said it unenthuiastically.
A character resembling Rupert Murdoch appears in the episode as a prisoner, defending Fox from Sideshow Bob's critique. This was seen by some in the Fox network as being somewhat insulting to the owner, and the writers were told that they should remove it just in case Murdoch was offended. When news of this potential appearance made its way to Murdoch himself, he said that he would love to be in the episode. Murdoch later appears in the episodes Sunday, Cruddy Sunday, and Judge Me Tender, where he voices himself. Dan Castellaneta voiced Murdoch in Sideshow Bob's Last Gleaming.