Eight years after the events of The Dark Knight, the Dent Act, dedicated to the late district attorney Harvey Dent, grants the Gotham City Police Department powers which nearly eradicate organized crime. Police Commissioner James Gordon (Gary Oldman) feels increasingly guilty for covering up the crimes committed by Dent, who was groomed into a murderer by the Joker. He writes a resignation speech confessing the truth but decides not to use it.

Bruce Wayne (Christian Bale) has become a recluse, broken by the death of Rachel Dawes (Maggie Gylenhaal) and has retired as Batman after taking blame for Dent's crimes. Cat burglar Selina Kyle (Anne Hathaway) obtains Bruce's fingerprints from his home and kidnaps congressman Byron Gilley (Brett Cullen). She hands the fingerprints to Phillip Stryver (Burn Gorman), an assistant to Bruce's business rival John Daggett (Ben Mendelsohn). In return, she asks him to have her criminal record erased. Stryver double-crosses Selina, but she uses Gilley's phone to alert the police to their location. Gordon and the police arrive to find the congressman, and then pursue Stryver's men into the sewers while Selina flees.

Bane (Tom Hardy), a masked mercenary, captures Gordon and finds his resignation speech. Gordon escapes and is found by John Blake (Joseph Gordon-Levitt), a patrol officer. Gordon promotes Blake to detective, with Blake reporting directly to him. Bane attacks the Gotham Stock Exchange, using Bruce's fingerprints in a transaction that bankrupts Bruce. Alfred Pennyworth (Michael Caine) reveals that Rachel had intended to marry Dent before she died. Alfred then resigns in an attempt to convince Bruce to move on from being Batman.

Wayne Enterprises is unprofitable after Bruce discontinued his fusion reactor project when he learned that the core could be weaponized. Fearing that Daggett, Bane's employer, would gain access to the reactor, Bruce asks Wayne Enterprises board member Miranda Tate (Marion Cotillard) to take over his company. Catwoman agrees to take Batman to Bane but instead leads him into Bane's trap. Bane reveals that he intends to fulfill Ra's al Ghul's (Liam Neeson) mission to destroy Gotham with the League of Shadows remnant. He engages Batman and delivers a crippling blow to his back, before taking him to a foreign, well-like prison where escape is virtually impossible. There, the inmates tell Bruce the story of Ra's al Ghul's child, born in the prison and cared for by a fellow prisoner before escaping?the only prisoner to have ever done so. Bruce assumes the child to be Bane.

Bane lures Gotham police underground and traps them there. He kills Mayor Anthony Garcia (Nestor Carbonell) and forces Dr. Leonid Pavel (Alon Abutbul), a Russian nuclear physicist he kidnapped from Uzbekistan six months prior, to convert the reactor core into a nuclear bomb. Bane uses the bomb to hold the city hostage and isolate Gotham from the world. Using Gordon's stolen speech, Bane reveals the cover-up of Dent's crimes and releases the prisoners of Blackgate Penitentiary, initiating anarchy. The wealthy and powerful have their property expropriated, are dragged from their homes, and are given show trials presided over by Dr. Jonathan Crane (Cillian Murphy), where all are sentenced to death.

After spending months recovering and re-training, Bruce escapes from the prison. He enlists Selina, Blake, Tate, Gordon, and Lucius Fox (Morgan Freeman) to help stop the bomb's detonation. He hands the Batpod to Selina, tasking her with helping people evacuate and saving herself. She asks him to come along, leaving Gotham to its fate, but he refuses. While the police and Bane's forces clash, Batman overpowers Bane. He interrogates Bane for the bomb's trigger, but Tate intervenes and stabs him. She reveals herself to be Talia al Ghul, Ra's al Ghul's daughter. Bane is her protector, who aided her escape from the prison. She uses the detonator, but Gordon has successfully approached the bomb and blocks her signal, preventing remote detonation. Talia leaves to find the bomb while Bane prepares to kill Batman, but Selina returns on the Batpod and kills Bane. Batman and Kyle pursues Talia, hoping to bring the bomb back to the reactor where it can be stabilized. Talia's truck crashes, but she remotely destroys the reactor before dying. With no way to stop the detonation, Batman uses the Bat to haul the bomb over the bay, where it detonates.

In the aftermath, Batman is presumed dead and is honored as a hero. With Bruce Wayne also presumed dead, Wayne Manor becomes an orphanage, and Bruce's remaining estate is left to Alfred. Fox discovers that Bruce had fixed the Bat's autopilot, Gordon finds the Bat-Signal refurbished and Alfred sees Bruce and Selina together while visiting Florence. John Blake resigns from the police force and inherits the Batcave.

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