Baltimore Det. Jimmy McNulty finds himself in hot water with his superior Major William Rawls after a drug dealer, D'Angelo Barksdale who is charged with three murders, is acquitted. McNulty knows the judge in question and although it's not his case, he's called into chambers to explain what happened. Obviously key witnesses recanted their police statements on the stand but McNulty doesn't underplay Barksdale's role in at least 7 other murders. When the judge's raises his concerns at the senior levels of the police department, they have a new investigation on their hands. Lt. Cedric Daniels is put in charge with Kima Greggs as the lead detective. As for Barksdale, he finds himself demoted to a low-level dealer after his arrest and he obviously has to prove himself yet again.

Lt. Daniels puts his team together but the extra help he's asked includes several less than stellar officers. It also includes McNulty, who is obviously in the doghouse. When one of the witnesses against D'Angelo Barksdale is found dead, McNulty and his homicide partner 'Bunk' Moreland bring him in for questioning. They have no evidence that he had anything to do with the killing but their instincts tell them otherwise. When news of the witnesses death hits the press, Major Rawls is convinced that McNulty is again responsible. Three of the newly assigned detectives, Hec, Prez and Carver decide to go to the towers and flex a little muscle only to have it turn into a major disaster.

Avon takes care of Omar's man Brandon but Wallace, who saw Brandon in the arcade, isn't too comfortable when he sees what they've done to him. Avon gives D'Angelo and Wallace a bonus for their good work. The police meanwhile get authorization to place taps for the pay phones used by D'Angelo and his crew but can only listen in when one of their suspects is using it meaning they'll have to keep the phones under constant observation. McNulty is in a tight spot when Major Rawls gives him a week to report back to his old job. When he realizes the connections McNulty's made in the various shootings, he announces he's going to arrest the Barksdales for murder and threatens to mess up the drug investigation.

Avon, Stringer and Wee-Bey discuss how best to deal with Omar after the attempted hit on Avon, deciding to let him think they want peace, whilst secretly planning to kill him. As such, Omar and Stringer meet for a parley, with security provided by Prop Joe. Meanwhile, Stringer insists on decreasing Avon's visibility in light of the detail's attempt to follow him after the basketball game. An irritable Phelan signs an affidavit for the new phone being used by the pit crew, and Pearlman tells McNulty that he is not up for automatic re-election, possibly because of the feathers he has ruffled due to his involvement with the Barksdale case. D'Angelo tries to understand why Shardene has left him, and after being clean for three days, Bubbles gets some advice from Waylon, before turning to Greggs for support. Meanwhile, McNulty attempts to flip Wallace, and the detail identifies Barksdale's main stash house. However, when Orlando's attempt to purchase weight gets him a lot more than he bargained for, Burrell sees an opportunity for a dangerous undercover operation.

While Greggs' life hangs in the balance, the entire department attempts to hunt down Savino. When Wallace flips, willing to testify that Stringer, Wee-Bey and Bird killed Brandon, Daniels stashes him in his grandmother's house on the outskirts of the city, but he soon becomes restless. Stringer tells Wee-Bey he needs to get out of Baltimore until the Savino investigation cools off, while Avon considers his next move. When McNulty and Pearlman try to pressure Levy into giving up Savino, he proves smarter than they gave him credit for. Meanwhile, when the detail's hand is forced, and a series of city-wide raids are ordered so as to appease Burrell's desire for "dope on the table," McNulty goes to see Phelan for help, but is surprised at his reaction. Daniels decides not to raid the main Barksdale stash house, but when word of his plan gets back to Burrell, he realizes there is a snitch in the detail. Elsewhere, Bubbles finds it increasingly difficult to stay clean.

Kima slowly recovers in the hospital. Stringer changes operations in the pit and the towers, rendering the wiretaps and clones useless, and prompting Burrell to begin dismantling the detail. Avon and Stringer meet Levy to discuss where their organization is vulnerable. Unbeknownst to the detail, Wallace returns to the pit to resume work. When Prez starts pulling political campaign finance reports, Pearlman is called to a meeting with a worried State's Attorney, and an angry Clay Davis confronts Daniels. Meanwhile, Stringer issues a difficult order to Bodie and Poot. With Shardene's help, the detail are able to install a camera in the strip club.

Due to the camera at Orlando's, the detail gather enough information to arrest Avon and many of his people, but, with Wallace dead, they are unable to bring charges against Stringer, who's left on the street. However, disgusted that Avon and Stringer had Wallace killed, D'Angelo flips on the entire organization, giving the detail more information than they could have ever hoped for. As Daniels figures out who the snitch is in the unit, Herc is shocked when he is passed over for promotion in favor of Carver, who scored lower on the sergeant's exam. In Philadelphia, Wee-Bey is arrested and gladly admits to murder after murder. Finally figuring out why Avon has been buying vacant properties in the city, Daniels, McNulty, Freamon and Pearlman take their evidence of political involvement to the FBI. Meanwhile, D'Angelo's mother, Brianna (Michael Hyatt), attempts to convince him to stand with the family.

McNulty goes on a self-assigned moral mission to identify his floater, but his old partner, Bunk, says they have more pressing matter at hand: finding Omar to testify against a Barksdale trigger man in one of last year's murders. To placate Valchek, Burrell asks Daniels to lead the detail investigating Sobotka, and Daniels agrees.

Trying to let go of police work and return to his marriage, McNulty gives up on identifying his Jane Doe. The detectives look into Sobotka and his money. For his union, Sobotka tries to play the political game. D'Angelo wants to live life outside of Barksdale's umbrella and Bell brings in outside help for the problem.

Greggs and McNulty recruit Bubbles to gather street intelligence on the Barksdale gang. Cutty seeks out the Barksdale gang after he loses his taste for the straight life. Bunk feels the pressure to find Dozerman's gun. Daniels worries that Avon Barksdale, having cut a prison deal, will be paroled. Stringer Bell tries to make amends with Donette.

Johnny pressures Bubbles to stop snitching for the detail. Cutty lies to his grandmother about going straight. McNulty realizes pursuing Barksdale and Bell is a losing cause, so he turns his attention to nailing Kintel Williamson. Colvin's free drug dealing zone, now known in the streets as Hamsterdam, scores a small victory. Avon Barksdale emerges from prison to a warm welcome from Stringer Bell.

Daniels goes ballistic when the detail gets reassigned to the Western District. Stringer Bell learns from Donette that Brianna is thinking about talking to McNulty. Bunk receives a gift wrapped surprise. A single cell phone allows Freamon to begin mapping out a communications network for the Barksdale organization. Marlo dispatches a drive-by on a Barksdale drug corner.

The wire begins to yield information about the Barksdale organization. Stringer and Avon reminisce on how far they have come. McNulty finds the way to a key piece of the puzzle in an unlikely place. Awaiting his fate, Colvin works behind the scenes to shape the outcome of Amsterdam, while protecting his men from possible repercussions. Bubbles considers a new partner.

Avon readies his troops for a seemingly endless war against Marlo. The detail works towards the top rungs of the Barksdale organization with the information garnered from the wire. While Royce continues to grapple with Amsterdam, Burrell offers a deal to minimize the fallout. Carcetti's political plans become obvious to his friend and fellow councilman Tony Gray. Bubbles offers his view of the world. McNulty changes tack.

With a bounty on him, Omar calls in a favor to Bunk. The election over, Royce and Carcetti make peace and contemplate their futures. At school, Prez tricks his students into learning math. Finally, Greggs uses 'soft eyes' at a crime scene.

Season Five premiere. As McNulty and the detail continue staking out Marlo's crew, recently promoted Sergeant Carver is welcomed by a cauldron of discontent from officers coping with unpaid overtime.

Although he tells Sydnor the Davis investigation could be a 'career case,' Freamon keeps a wary eye out for Marlo, who takes care of some unfinished business and strikes a business deal with Barksdale.

Carcetti's master plan for the police department is leaked to the press, sending the brass into a panic. Marlo turns to Proposition Joe to help with an enviable problem. Whiting and Klebanow drop a bombshell on the newspaper staff.

Campbell tries to smooth out the transitions in the police department. The newspaper scrambles to confirm surprising news from City Hall, but lose out to the TV media in scooping a high-profile Grand Jury appearance.

Marlo forges an alliance with a drug connect, who shows him a new communications trick. McNulty's case gets increased attention from the newspaper, in large part thanks to the addition of Templeton to the reporting team.

Mystified by Omar's disappearance, Marlo and Chris ramp up their efforts to locate their nemesis. After a sparsely attended waterfront ceremony, Carcetti fires away at a larger press event--and recasts himself as a champion for the homeless.

An unexpected call puts Templeton back in the spotlight--and gets McNulty more attention than he expected. Bunk bucks at Landsman when ordered to help with the force's most recent red ball.

Baltimore's renewed police commitment brings fresh recruits to Daniels and McNulty, starting with Carver. Facing a new political challenge, Carcetti is forced to make dangerous political deals.

With Steintorf ordering Rawls to initiate 'creative' remedies for the rising crime rate, Freamon's vigilance pays off with a promising lead, sending Sydnor and the department into overdrive.

Carcetti maps out a damage-control scenario with the police brass in the wake of a startling revelation from Pearlman and Daniels. Their choice: clean up the mess...or hide the dirt.