Crosetti focuses his investigation into the shooting of Officer Thormann on one suspect, while Lewis continues to investigate. Meanwhile, Pembleton and Bayliss pursue different leads in the murder case of eleven-year-old Adena Watson.

Howard and Felton are in court over the Pony Johnson case, Crosetti and Lewis go head to head with the Secret Service and Bolander and Munch argue over drug legalization. Meanwhile, Pembleton gets an unexpected job offer.

Bolander asks Kay if she would double date with him and Linda, to try to take the pressure off his first real date. A slain phone-sex operator is found clutching a note naming her boss as the perpetrator, Bayliss and Pembleton investigate. Munch has trouble dealing with Bolander's happiness, so he crashes the double date and makes everyone miserable. A man is shot to death over a pen at the library, Lewis and Crosetti investigate and find a man with a pen fetish. As Bayliss looks into the murder he begins to get involved.

When the winner of the city's Good Samaritan Award is murdered, Gee and his staff are called to help the new female night shift commander. Pembleton is at odds with the detective he shares a desk with. Beau and his wife separate and Kay gets caught in the middle. Meldrick and Munch have plans to buy a bar and try to persuade Bolander to also become a partner. Bayliss agrees to become a ""silent"" partner. In passing, Crosetti is said to be in Atlantic City on a ""shots, slots and sluts"" dream vacation.

Bayliss continues his relationship with the artist, but she's told her boyfriend. When she tells Bayliss that her boyfriend hit her upon hearing the news, it makes Bayliss so mad he confronts him. Pembleton and Bayliss investigate the death of a woman who's received a delivery of fresh flowers, although she's been dead over two weeks. Bolander and Munch investigate the shooting of Thorne's source, who's linked to a cocaine cartel, then Thorne is shot. Gee tries to get the department to get him a replacement for Crosetti. Thorne's daughter decides to keep his newspaper going. Beau tries to find out where his wife has moved the family. With Meldrick and Bayliss' disagreement over the artist, Munch is left without partners for the bar. Bayliss goes over the edge when the artist dumps him, so he holds up a liquor store for 11 cents; Pembleton gets him out of it.

Munch spreads his usual Christmas cheer. Russert, who misses detective work, joins Meldrick on an investigation into the murder of a material witness, when she discovers she knows something about the victim's case. Munch and Bolander investigate the death of a man in a Santa Claus suit and Munch spends the evening with whom they believe is the victim's son. Beau buys Christmas presents for the kids, although he still doesn't know where Beth and the kids are. Bayliss searches the station in search of a game of hearts.

Russert's old partner joins the homicide unit, but she suspects that he is taking his work frustrations out on his wife. Pembleton struggles with his pride and domestic life as Gee and Bayliss try to convince him to return. Bayliss is partnered with Lewis and on the way to the crime scene gets the ride of his life. Bayliss tangles with a reporter. Beau is in Philadelphia with his kids. The bar has its grand opening.

Pembleton receives an extradited prisoner from New York City Detective Logan. Bayliss is put in charge of investigating the death of Gordon Pratt, but gets no cooperation from anyone on the force. Beau wants to return to active duty. A woman recognizes Munch from an old picture that is hanging in an art gallery across from the precinct. To Munch's embarassment he discovers that an old girlfriend, who's a photographer, is displaying an old picture of him in the buff at her gallery showing. Pembleton and Meldrick investigate a random shooting of a woman, and they clash over where the weapon may have been fired. They also find a woman who's shot her boyfriend and stuffed him in the freezer. Beau accompanies Gee on an investigation and must come to grips with his inability to look at a dead body the same way.

Beau meets Megan's cousin, NBC's Tim Russert. Kay and Stan return to duty, after Stan undergoes a final test, and Kay finds her desk has been moved. They, like Beau, must both get used to the job again. Tim and Beau investigate the discovery of a skeleton found buried in a backyard. Bolander and Munch discover an unlikely suspect in the murder of a quiet elderly couple: their grandson. Gee exposes Granger, who used his relatives in some department plumbing contracts; the information is leaked to the papers, Granger is forced to retire. Barnfather is made colonel and a new captain is named, Megan Russert. The higher ranks of the Baltimore police department are now more politically correct, but Gee doesn't like it.

A 16-year-old murder case must be reopened when the daughter of the convicted killer holds Col. Barnfather hostage. Pembleton and Bayliss investigate an elderly man whose wife died of drowning in the bathtub. Gee and the newly appointed Capt. Russert clash over the handling of the hostage situation. Bolander, Munch, Howard and Felton must go to the archives to find the records of the case. Lewis meets a strange homeless man who's witnessed the suicide of a man who committed the original murder and the detectives race to overturn the previous conviction. A new ""old"" bartender tries to convince Munch to go with the latest rage, microbreweries. Bolander and Lewis try to connect the suicide victim to the man on death row.

A convict is released from prison and begins to get his revenge on Frank by frustrating the investigation he is currently working on and also by terrorizing his wife.

Bolander and Felton are suspended for 22 weeks without pay for incidents related to activities at a police convention in Washington, DC. Howard plans to take the sergeant's exam. Pembleton and Bayliss are assigned to investigate the death of a body found at an arson. At the scene they meet an arson detective that clashes with Frank's working style. Frank hesitates chasing a suspect, and later we learn that his wife is pregnant. Munch also decides to take the exam, and when the wagering begins on who is going to pass, everyone favors Howard. While the detectives are debating whether the fire was set to cover the murder, another fire is started.

Lewis and Kellerman try to subdue a large man who's gone on a rampage. The large man is finally subdued and they find him digging up his mother. This case brings out some information about Meldrick's family, and he tries to see his brother, who doesn't want to see him. Kay tries to keep the identity of her new boyfriend a secret, mainly from John, which drives him crazy. Pembleton and Bayliss investigate the death of a man whose body is found in a car. Scheiner says he died from internal bleeding, not the gunshot wound to the groin he was treated for at an emergency room earlier that day. They discover that the doctor may have had a motive for doing a less than adequate job treating her patient.

Continuing the investigation in New York City, Egan's wife is questioned by Frank and Tim. Just a few hours later, Egan's wife is killed and Egan's son is seen running. Kendall is taken into protective custody until he gives up the suspect's name. Lennie Briscoe and Rey Curtis come to Baltimore. The suspect tried to escape in a seaplane but is caught. This crossover started on Law and Order S06E13 Charm City (I).

Russert and Munch are assigned to work a case together; they find a retired cop who was murdered near his wife's tombstone. The dead cop's son asks Lewis, whom he went to the academy with, to get involved with case. He also makes his own inquiries, which get him into a bit of trouble. A suspect is arrested; however, despite the overwhelming evidence against the accused, the jury acquits him. The son contemplates delivering his own justice.

A young girl is murdered, in a style similar to Adena Watson's murder. Frank demands to work the case alone as Bayliss begins to think that the two crimes might be related. Bayliss' obsession with trying to get this case solved and linked to Adena's murder causes the two of them to clash. Howard learns that Brodie has a crush on her and tells him she doesn't like the joke that's being pulled-- only problem there is that it's the truth.

A prominent attorney is murdered and the murderer presents himself to Pembleton and Bayliss with a videotape that implicates him. Brodie works on increasing his self-image. Kellerman is determined to find out who's the ""lunch bandit."" The NSA steps in on Pembleton's murder investigation and provides him with a guilty party, even though they know he didn't do it. Bayliss' disgust with the interference doesn't sit well with Gaffney who wants to charge him with insubordination.

A trash-talking radio talk-show host makes a proposal to his listening audience. Lewis announces to Kellerman that he is getting married today, then he throws up. He motivates the rest of the squad to help him with the final details as he is getting married ""tonight after the shift ends."" Kay brings her sister with her to the station. Since the whole squad is busy with Lewis' wedding, Gee takes Howard out to work the homicide of the radio talk-show host. One of his listeners took him up on his proposal. Munch is skeptical about the Lewis wedding; he thinks it's an elaborate practical joke. Bayliss and Kellerman vie for the attention of Kay's sister. Gee shoots and kills a potential suspect, but the suspect was in jail at the time of the talk show host's murder. The guy who fingered him admits that he did it as a joke. The wedding is no hoax. During the festivities Pembleton's wife goes into labor.

Night has fallen and the crisis is no closer to being resolved. Gee demands that Barnfather make a decision. Frank continues to trying to adjust. Frank insists on going to the hostage scene. The identity of the hostage-taker is made when he demands that his pig be brought to the school. When the pig doesn't arrive in time, he sets a fire and seriously wounds a hostage (who later dies) and then becomes badly burned. Brodie takes issue with Munch's treatment of Pembleton. The paperwork gets completed and the hostage-taker is formally charged. Frank makes a decision regarding his recovery.

The new Chief Medical Examiner (CME), Julianna Cox, speeds into town. An FBI agent, Pandolfi, conducts interviews with the squad about Kellerman. Frank looks for way to celebrate his anniversary with his wife. The new CME arrives on the scene of a homicide that Lewis and Bayliss are working on, they lay down their respective ground rules. Bayliss' murderer confesses to committing another crime. Kellerman is worried by the ongoing investigation and takes it out on another arson officer. Brodie offers to make chili for the Lewis family but the dinner turns into a fight for Meldrick and his wife. From a suggestion by Frank, Bayliss and Lewis get the other body exhumed and checked out. Frank and Mary celebrate their anniversary. Bayliss gains some insight into the new CME.

Pembleton waits with anticipation for the phone to ring. It does and with Bayliss as the primary, they proceed to investigate the triple murder of a divorced woman and her children. Kellerman asks Brodie not to return to the boat. Lewis and Munch get a homicide that they can track back to Luther Mahoney. Bayliss and Pembleton disagree on who the primary suspect is in the murder. Mahoney's nephew wants to remain ""monogamous"" in implicating his uncle. Kellerman gets his summons to appear before the grand jury. Frank and Tim must work out the finer points of working in the box together again. Mahoney's hand reaches out from jail and silences his nephew; the case is a bust. Lewis lays down the law to Luther Mahoney in the Waterfront Bar. Cox finds Kellerman and his predicament intriguing and offers him some company, the night of his summons.

Frank gets his first case as a primary-- unfortunately it is a case that involves the shooting of Danver's fiancée. Danvers is concerned about Frank being the primary and keeps throwing his opinions into the investigation. Danvers changes his perspective on the death penalty and also reflects on his past performance in many of the cases he's tried. Brodie continues to look for housing; the latest place he tried staying was the morgue. Kellerman is discouraged when it appears as though Cox may have only been looking for a one-night stand and nothing more-- so he takes a sick day. Gee takes some time out of his day to have a talk with Kellerman's former partners to see where they stand with him in regard to their testimonies to the grand jury. He also sees the Deputy Commissioner to see what can be done for Kellerman; what he learns instead are some truths about the Gaffney promotion.

A man transporting 72 condoms filled with heroin bound for Luther Mahoney is found dead in hotel. The department takes this opportunity to set up ""Operation Get Luther."" The operation almost goes off as planned, except Luther Mahoney gets Lewis' gun and is holding it on him as Kellerman and Stivers enter. Frank and Tim agree to become partners again. Tim stops by to see his uncle. Munch takes a call from a convict who was looking to talk to Bolander. He has information on an old murder case that should be a done deal. That involves the digging up of section C of the parking lot at a racetrack. Munch discovers that the supposed victim is alive; however, he isn't that way for long.

A slightly intoxicated man (driving with his wife) aggressively whips his car around a state-owned truck; the offended truck driver rams their car; their aggression results in a collision where both drivers die. The man's wife is in serious condition. Kellerman and Munch investigate this case. Falsone gets prepared for the final hearing in his bid for custody of his son. Meanwhile, the other detectives investigate the death of a man who made a mobile phone call from the coffin in which he had been buried alive. The coffin was buried in the parade ground of an old spy school. The victim might have remained alive if the lid hadn't been sabotaged to collapse. In the car / truck collision case, Cox's boss wants her to ""verify"" the results of the car driver's blood alcohol level to help protect the state from serious litigation. An old Russian friend of Gee's furnishes them with information that leads the detectives to the discovery of a group of men who couldn't make it as spies. (They cal

Pembleton and Falsone look into the death of an elderly man who might have been killed by the pit bulls owned by his grandson. The other detectives hang out at the Waterfront and tell stories about stupid criminals they have met. The judge in the wrongful death suit of Luther Mahoney decides there is enough evidence to turn the suit into a jury trial. Kellerman suspects there might be something up, so he tries to go and see the judge.

Ballard and Munch catch a case involving the death of a prominent businesswoman. Pembleton and Bayliss catch a similar case. Both deaths might be the suicides they appear to be, but as the detectives begin their investigations the facts reveal otherwise. Lewis attends his disciplinary hearing and receives his punishment and is allowed to return to duty in the Homicide unit. Falsone and Lewis investigate another Mahoney related death. The situation within the Mahoney organization may be getting out of control as jury selection begins in the civil suit. The judge dismisses the civil suit, just as he told Kellerman tbat he would. Kellerman confronts him after the trial about the FBI's investigation in front of several witnesses. Bayliss joins Ballard for dinner and he reveals some of his secrets.

Bounty hunters shoot, killing the wrong man, as they enter a building where their fugitive---a man named Joe Errico---has shot at them (and subsequently gotten away). Gharty has vague memories of a drinking binge from the night before. Falsone and Stivers catch the bounty-hunter case. Sheppard, during her days with the fugitive squad, had dealings with the head bounty hunter. Gaffney stops Gee and MGee on their way in, Baltimore magazine wants to do a father and son piece, using the wine case as a focal point. Gee is not interested, especially about the use of the wine case. Gharty struggles as he tries to reconstruct the events of the night before. Munch is bothered by Gharty's stories of Vietnam and each grows to dislike the other - perhaps some competitiveness over Billie Lou is beginning to brew here. Bounty hunter P.J. Johnson, who was identified as the triggerman, is charged and placed in one of the holding cells, near some of his previously captured quarry. Within an hour his ba

Falsone and Lewis investigate the murder of a man in his own backyard. The victim's nose was removed from his body. Ballard and Gharty investigate the murder of a bartender at a strip club. Canvassing the neighbors, Falsone feels that one of the neighbors isn't what she appears to be. Later when they interview her husband, he gets the same feeling. The MEs complete a record setting day of completing autopsies, but find themselves with one unidentified extra body. Munch and Bayliss get the call, but insist that until they can get a crime scene to go to, the problem isn't theirs. Griscom finds the crime scene in the morgue freezer. Ballard mentions to Gharty that he might want to consider stopping his drinking. Falsone's theory about the victim's neighbors proves true when MGee checks into the Witness Protection program. MGee's phone call puts the wheels in motion to get the family moved. Falsone and Lewis arrive just in time to take their suspect into custody and away from the Feds. The