O tenente James Gordon (Ben McKenzie) é recém chegado em Gotham City e deseja lutar contra os crimes que aterrorizam a cidade, independente da corrupção que toma conta do departamento policial. Em seu primeiro caso, ele investiga o assassinato do rico casal Thomas (Grayson McCouch) e Martha Wayne (Brette Taylor). Ele também precisa ajudar Bruce (David Mazouz) a lidar com a perda dos pais.

Um casal está recrutante adolescentes desabrigados para trabalhar para o Dollmaker... sem saber, eles também raptam três amigos de Selina Kyle. James e Harvey perseguem o casal, e Selina passa a correr perigo. Enquanto isso, Oswalk retorna a Gotham e planeja sua vingança contra Fish Mooney.

James e Harvey investigam o caso de um vigilante que usa balões para mandar suas vítimas para uma armadilha; Oswald procura por um novo ajudante após seu retorno a Gotham.

Uma votação para decidir o futuro do distrito de Arkham, e políticos de ambos os lados passam a correr perigo. Gordon e Bullock correm para proteger a prefeitura, e James recebe a visita de um velho amigo.

Uma nova droga fatal que concede poderes sobre-humanos toda as ruas de Gotham. Enquanto Jim e Harvey investigam, Oswald conta que trabalhava para Fish Mooney, e é confrontado por Gordon. Bruce, enquanto isso, descobre que a Wayne Enterprises pode estar envolvida com a produção da droga, e se dispõe a descobrir a verdade.

Um assassino ressurge do passado em busca de novas vítimas. Harvey tem certeza que matou o serial killer há anos, e por isso acredita que seja um farsante. Enquanto isso, Oswald visita a mãe, e Montoya e Renee reúnem as provas de que precisam para afastar Jim da polícia.

As violence between Maroni and Falcone continues to escalate, Penguin reveals a new element of his manipulative strategy, forcing Gordon to deal with the consequences of his decision to spare Penguin’s life

Gordon and Bullock investigate a Gothamite who runs a deadly fight club for candidates applying to work at his financial firm. Bruce returns to school and gets a visit from a new friend.

Trying to close the Wayne murder case, a young Harvey Dent and Gordon team up, much to Mayor James’ chagrin. Meanwhile, Penguin makes contact with Mooney’s secret weapon, Liza.

Following a misstep, Gordon is reassigned to duty at Arkham Asylum. Meanwhile, Selina leads a new friend on a perilous journey through Gotham to evade the assassins after her.

Gordon’s assignment at Arkham Asylum gets off to a rocky start when the murder of a guard ignites an investigation, leading him to meet Dr. Leslie Thompkins. Cobblepot continues to build his army.

When the key witness in a homicide ends up dead while being held for questioning by the police, Gordon suspects that it’s an inside job and looks to an old friend for information. Meanwhile, Oswald Cobblepot takes control of one of Fish Mooney’s prized possessions, as she gets a gets a small taste of her own medicine.

Fish Mooney reveals a secret of Oswald Cobblepot's, prompting Maroni to take him on a trip to test his loyalty. Meanwhile, Gordon and Bullock hunt down a killer who targets victims with severe phobias and Bruce Wayne confronts Gordon for failing to make progress on his parents' murder case.

Gordon and Bullock set out to stop Gerald Crane, a biology teacher who has been harvesting the glands of his murder victims. Meanwhile, after finding herself in an unusual setting, Mooney continues plotting to gain power, and Falcone attempts to change Maroni's plan for the Penguin.

Gordon takes Dr. Leslie Thompkins to the circus, but the day turns quickly when the circus comes under attack. Then, Falcone enlists Butch Gilzean to help Penguin with the nightclub, while Fish Mooney is otherwise occupied. Also, Bruce Wayne schedules a meeting with the Wayne Enterprises board.

Following several bank robberies, Gordon and Bullock investigate the Red Hood gang. Selina Kyle continues to bond with Barbara, and Fish Mooney tries to reclaim her position in the underworld.

Gordon seeks information about the controversy involving Loeb; Fish's allegiance with the prisoners is questioned; and Bruce copes with the aftermath of an attack close to home.

Gordon and Bullock inspect a cold case involving "the Ogre", a serial killer who targets young women in Gotham City. Meanwhile, Fish plots her escape from the Dollmaker, and Bruce and Selina confront Reggie.

Gordon and Bullock continue their investigation of the Ogre, who begins to make his move on someone close to Gordon. Meanwhile, Bruce and Selina team up to expose a corrupt Wayne Enterprises employee and Nygma comes to Kristin Kringle’s defense.

The Ogre breaks down Barbara’s emotions, while Gordon and Bullock go to great lengths to track him down. Meanwhile, Penguin leads a massacre, beginning an epic war, while Bruce learns the truth about Wayne Enterprises and Nygma deals with his recent actions.

As Gotham City’s gang war reaches its boiling point, Fish Mooney goes head-to-head with Maroni and Penguin in an attempt to re-stake her claim on the city. Meanwhile, Barbara and Leslie Thompkins are brought together after recent events, and Bruce searches Wayne Manor for any hints that his father might have left behind.