Simone and Sipowicz investigate the brutal murder of the teenage daughter of a woman whose ex-husband has made threats against her. Meanwhile, Lesniak and Martinez's latest case involves them trying to nab a con artist who sells a black box to homely women, promising them beautiful skin. The new zone commander, Captain Clifford Bass, checks in and lets Fancy know his overtime policy, which doesn't sit well with Sipowicz when it compounds their investigation. Elsewhere, while Simone's romance with Benita becomes more serious, he also deals with a childhood friend, named Ray, who is now involved with a nightclub that is frequented by wise guys and other criminals.

Simone and Sipowicz search for a killer following a shooting spree, which left several people dead and where a rookie cop's missed shot also killed a bystander. Meanwhile, Fancy's younger brother, Reginald, a policeman in the 8th precinct, has racial troubles with his commanding officer and Fancy intercedes on his behalf and his own boss, Captain Bass, covers for him. Sipowicz sees a doctor and discovers he has an enlarged prostate and Sylvia mistakenly thinks their lack of sexual activity over the past few weeks was because of the rape incident from her past that she told him about.

Fancy works with Martinez to help him get ready for the inter-precinct boxing tournament. Meanwhile, Simone is attracted to the new undercover cop, Diane Russell, who is working with him to catch a wanted arsonist in a sting in which Lt. Fancy's informant, Vinny Greco, returns to offer more advice and annoyance to everyone. Elsewhere, a woman that Sipowicz gets to testify in a case is murdered by the men she was going to testify against, and Sipowicz tries to prevent the murdered woman's husband from going after the gang members responsible.

Fancy is less than enthused when Ronnie Drucker, a detective under surveillance by Internal Affairs, is assigned to the squad and Simone is asked to keep an eye on him. Both Drucker and Simone work on a case where an elderly man has been accused of exposing himself to a young boy. Sipowicz, Martinez, and Russell investigate the murder of a pimp in a laundromat which is witnessed by a young homeless woman who turns out to be Holly, the teenage runaway who helped the detectives out on a previous case (from 'The Bank Dick' episode). Meanwhile, John Irvin asks Sipowicz if he should approach Lesniak to congratulate her on "coming out." But she won't listen to his gay pride talk as does everyone else.

While tracking down Jimmy, who drugged and date-raped her the previous night, Russell works with Martinez and Medavoy on a case where a man with a muscular dystrophy was killed in a very tight knit community. Meanwhile, Simone and Sipowicz work on another murder case that may have been masterminded by a married couple. Also, Fancy wrestles with Captain Bass and knowledge of the fact that Simone is going to be promoted to Detective 1st Grade, and Sipowicz isn't.

Fancy and his wife are pulled over and harassed by a racist police officer for a burned out taillight, and he and the precinct commander, Captain Bass, don't see eye to eye on the procedures followed during the stop. Meanwhile, Sipowicz has some unresolved issues to work out Andy Jr.'s death when he begins having a string of dreams involving his late son. At the same time, Sipowicz works with Simone on a rare night duty and gets a case involving trying to find the perpetrators of a bar robbery, while Simone locks horns with the conniving Detective Eddie Hazell who is seeking to derail Simone's investigation to take the credit for nabbing the robbers all by himself. Also, Medavoy, Martinez and Russell work together on a sting operation to catch two female con artist investors defrauding old and crippled women.

Simone and Sipowicz investigate a shooting that is related to the victim trying to leave a street gang. Meanwhile, Kirkendall and Russell investigate the death of a baby who appears to have been shaken to death by the baby-sitter. Medavoy and Martinez look into a murder at a garage where they have a suspect who looks guilty despite the fact he claims to have an alibi. That evening, Medavoy has dinner with Abby and her lover, Kathy. Also, Simone takes Russell out to a movie and proposes to her again, and this time she accepts.

Danny wakes up in Diane's bed. Andy and Katie get Theo's test results. A former colleague of Bobby's reaches out to Diane from prison. The team investigate a series of cab-driver shootings.

Fancy bawls out Diane and Danny about being in a relationship. A man traveling on the subway is killed. Denby is implicated in the courier scam.

Danny is restored to full duty. Off. Szymanski's cousin is knocked down in the street and killed. Capt. Bass's wife is injured during a robbery at her store. Greg plays matchmaker.

A man caught carrying a cash register takes Andy and Danny to a body. Fancy is packing up to leave. His replacement alienates the squad before he's even left.