A "friendly" date between Tommy and the widow of his dead cousin takes a unexpected turn when she makes a move on Tommy. Franco's ex-girlfriend shows up at the firehouse and claims he's the father of her five-year-old daughter, turning his life upside down.

Tommy attempts to handle the insanity of his father while defending Colleen's new lifestyle to Janet. At the firehouse, Sean and Mike the Probie unknowingly launch a full blown wager among the crew.

While Tommy attempts to make reason of the chaos in his life, he continues to defy death while pulling dangerous stunts on the job. Lou admits his infidelity to his wife and receives an unexpected surprise. When tragedy strikes his family, Tommy must come to the rescue of his father.

The hockey game rematch between the NYPD and the FDNY is right around the corner and Tommy must figure out a plan to save himself from being pummeled by the cops who have it out for him. Tommy's relationship with Sheila is discovered by the guys and they must adhere to tradition to handle it in their own way. When Tommy is visited by his demons during a fire, Franco comes to his aid... with devastating results.

In the opener to the second season, troubled Tommy Gavin is having a difficult time adjusting to life at his new uneventful firehouse after the volatile split with his old crew. On top of this he is still looking for his missing wife who has kidnapped his three children and he has to come to terms with the fact that his dead cousin’s wife is pregnant with his baby. His frustrations come to a head and he has a meltdown with a street vendor selling 9/11 memorabilia.

In an effort to get more time off to search for his wife and kids, Tommy joins the new firehouse’s Barbershop Quartet. Meanwhile back at the old station, Lou and Chief Reilly conspire to get Tommy back, but the rest of the crew has grown fond of his replacement.

Tommy asks his cousin for help in understanding the bizarre visions he's been having. The crew tries to help Laura understand the essence of male comaraderie.

Tommy has a chance at finding his kids with help from his oldest daughter. Chief Jerry asks his son for help when his wife's condition worsens.

Tommy seeks the truth about Sheila while trying to get his kids back; Lou does not like the person he has saved through a bone marrow donation; Franco's addiction puts those he loves at risk; Sean's new girlfriend habitually dates firemen.

Franco's addiction to painkillers has driven him to a support group to get help with his problem. A young boy clings to life after Tommy saves him from a fire. Jerry is introduced to his gay son's life partner.

Jerry forces the crew to attend a birthday party that his son is throwing for his boyfriend. Meanwhile, Tommy makes a move on Mariel after she tells him she might not be his half sister after all. Franco asks Laura to move in with him while Sheila tries to make Tommy jealous by showing off her new girlfriend.

Tommy starts taking Janet's antidepressants. When Sean meddles in Franco and Laura's troubled relationship he makes things worse. After a gay visitor, the crew wonders about Mike's sexuality.

When Tommy, Johnny, and Mickey confront Father Murphy it results in tragedy. Sheila needs Tommy's help with a domestic issue. Jerry decides it's time to get a nurse to care for Jeanie. Lou offers to help Candy out with her situation. And Laura discovers the truth behind Franco's poetry.

Tommy copes with a tragedy. Jerry must decide what to do when his wife's condition worsens. Sean has a crisis of faith. Lou learns some shocking facts about Candy. And the crew responds to a multi-level building fire with people trapped inside.

Janet decides to meet with Tommy after not speaking with him for months since the sudden death of their son. Uncle Teddy refuses to allow anyone to help him get out prison. Tommy is shocked when he accidentally discovers just who his nephew has been sleeping with.

During a night out, Franco and Tommy meet two women. Tommy is finding himself bribing his daughter Colleen before she tells their mother about his indulgent treatment of her sister Katy. Jerry visits his wife Jeannie in her expensive nursing home and soon goes to Lou for financial help. Meanwhile John Sr. insists on having his 83rd birthday at a restaurant that no one else likes.

While Tommy and Johnny have another encounter, Janet and Angie re-establish their acquaintance. Meanwhile, Sheila is unhappy when she sees Tommy and Angie together. Maggie wants to get back together with Sean. Mike hooks up with a woman at a bar, making his roommate, Chris, jealous. Franco finds out about Jerry's second job at the pub, and the money in the no-smoking jar goes missing.

Following a meeting with Janet, Tommy has yet another confrontation with Johnny; Teddy's conjugal visits with Ellie prove to be a letdown; and Franco tries to befriend his new girlfriend's mentally challenged brother. Elsewhere, Tommy keeps his vigil at Stack's bedside.

The Gavin clan stages an intervention after several disturbing family calls; the mysterious woman (Gina Gershon) from the restaurant leaves Tommy wanting more; Janet must take matters into her own hands to get her baby back; and a depressed Mike calls Tommy in a moment of despair

The Gavin family AA group's first meeting doesn't go exactly as planned. Tommy bribes Colleen for information on Janet. Franco learns the truth about Natalie from Richie while Lou contemplates revenge on Cousin Mike.

Tommy goes on another memorable date with Beth for the sake of the crew; Black Shawn proves himself in an unexpected arena; Franco realizes what he's really lost while Latrina shows she knows how to keep Lou happy; Dad gives Tommy some insight into his childhood

Tommy plays hero in someone else's uniform, confusing the crew; Colleen finds a new reason to get upset with Tommy; Natalie asks Franco for a favor; a rift between Mike and Black Shawn nearly leads to blows; and Tommy makes a move on the chief's daughter. This does not please the chief.

In the fourth-season finale, Sheila learns that Jimmy's ghost has been spotted on several occasions, so she investigates. Meanwhile, Colleen blames Tommy for her failed relationship; Franco and Natalie come to an understanding, as do Lou, Cousin Mike and Latrina; and Tommy spends time with his father.

Tommy copes with the loss of his father and a new man in Janet's life. Sheila finds a different way to deal with her issues while Sean, Franco, and Mike concoct a surefire way to get rich and laid.

An exotic visitor sparks mixed reactions in the firehouse. Tommy deals with the possibility of expulsion from the FDNY and a new sponsorship role in AA. As Mike and the guys renovate their new bar, Sheila learns that being a big sister isn't always easy.

The calls from Tommy's AA sponsee increase as Tommy attempts to navigate a touchy issue with Colleen. Genvieve's interviews spark controversial viewpoints in the firehouse concerning the political and religious implications of 9/11-viewpoints which Mike will not tolerate.

Tommy makes a shocking discovery regarding Jimmy's whereabouts on 9/11. Sheila takes drastic measures to purge the negative energy from her life as Sean's back pain gets worse. The bar, however, finally takes a turn for the best as the guys enjoy a fruitful opening night.

A personal milestone finds Tommy back at Ground Zero. Genevieve's perspective on 9/11 incenses Tommy, whereas Franco's point of view has more dire consequences. Meanwhile, Sean's back pain turns out to be more serious than he had expected and the success of Mike's bar becomes a handful.