Gordon and Bullock track down a nemesis from the past, leading to a standoff between Jerome and Gordon. Meanwhile, a magic show at the Gotham Children's Hospital gala turns into a hostage situation.

When Bruce Wayne is kidnapped, Gordon must look to some unlikely and dangerous allies for help. It is a battle of the villains, and not everyone makes it out alive.

In an attempt to clear his name, Gordon steals his case file and approaches Nygma for help. Meanwhile, Penguin discovers his step-family's role in his father's death, and awakens from his conditioning.

With Jerome on the loose with one target in mind, Bruce and Alfred's safety is compromised. Meanwhile, Gordon's uncle Frank pays him a visit, and Nygma and Penguin are forced to confront their issues face-to-face, with possible deadly consequences.

With the deadly virus spreading throughout the city, the search for the antidote continues, as Fish Mooney, The Riddler and Penguin reveal plans of their own. Bruce meets Ra's al Ghul and completes his last task in order to fulfill his destiny, but realizes he can't let go of his past. Meanwhile, Gordon tries to win back Lee, and past alliances within Gotham City are broken, while new alliances are formed.

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

On the heels of his reinstatement, Gordon is thrust onto the high-profile case tracking the deadly inmate escape from Arkham Asylum. Meanwhile, Galavan plans his next move, while Bruce asks for help from his father's old friend to unlock the secrets in his office, and Nygma asks out Kristin Kringle on a date.

Gordon confronts a suspect who is connected to Galavan, but falls short of obtaining any information. Meanwhile, Bruce gets one step closer to discovering the name of his parent's killer.

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.

Butch leads Penguin and his men to the warehouse where Gertrude is being held, as Penguin plots his revenge on Galavan for kidnapping his mother. Meanwhile, Nygma deals with the aftermath of a deadly accident.

Azrael is on the loose in Gotham City, which sparks Penguin's need for revenge. Meanwhile, Bruce enlists the help of Selina Kyle to help track down Professor Strange, as he evades arrest for his experiments.

On the run from Gordon and Bullock, Dwight tries to revive Jerome, in turn, activates his acolytes around Gotham City. Meanwhile, Selina's mom's intentions in Gotham are revealed, and the power play between Penguin and Nygma escalates as Barbara's plans are set in place.

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 the virus begins to spread in Gotham, the laboratory that is developing a cure is compromised. Mario and Gordon face off before the wedding, Selina meets an unexpected face and Barbara comes to Nygma with information about Isabella.

With the deadly virus spreading throughout the city, the search for the antidote continues, as Fish Mooney, The Riddler and Penguin reveal plans of their own. Bruce meets Ra's al Ghul and completes his last task in order to fulfill his destiny, but realizes he can't let go of his past. Meanwhile, Gordon tries to win back Lee, and past alliances within Gotham City are broken, while new alliances are formed.

Galavan sends Barbara after Jim Gordon, while he tries to make a business deal with Bruce Wayne. Barnes and Bullock are hot on Barbara’s trail, and Nygma has a run-in with a familiar face.

Gordon and Bullock follow a trail of clues in a robbery, not knowing they were left by Nygma; Gordon receives an anonymous threat; Penguin meets his father; Bruce works on his street smarts.

Gordon and Bruce question Professor Strange about project chimera which leads Strange to send the newly resurrected Galavan to confront Gordon. Meanwhile, Gordon investigate's who Professor Strange is.

Gordon races against the clock to save the city from the Alice Tetch Virus, when Lee Thompkins intercepts with a plan of her own. Also, Alfred sees a big change in Bruce Wayne after his work with The Shaman. Meanwhile, some of Gotham's most deranged villains band together.

The series flash-forwards 10 years into the future, as Bruce is set to return to Gotham for the opening of the new Wayne Tower. A series of crimes leads Gordon to believe Penguin and The Riddler are up to their old tricks. However, when Bullock is framed for a murder, Gordon begins to piece together an even more sinister plot targeting the city, and a new figure emerges from the shadows to be the hero Gotham desperately needs.

In an attempt to get his job back, Gordon seeks to capture Jack Gruber, a deranged electrical genius who escapes Arkham Asylum. Meanwhile, Falcone struggles to hold onto his empire after Fish Mooney makes her next move.

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.

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.

Penguin is King of Gotham and after a shakeup at the GCPD, Detective James Gordon's moral compass wavers, as he seeks help from Penguin. Meanwhile, Bruce Wayne continues to explore the secrets from his father's office, and Gotham newcomers Theo Galavan and his sister, Tabitha, make friends with some unlikely allies - a group of dangerous inmates from Arkham.

After Bridgit Pike rejoins her brothers, a new spark of courage ignites within her, as she chooses to take control of her future. Meanwhile, Kringle and Nygma's relationship will take a new step and Penguin and Galavan continue to battle for control of Gotham City's underworld.