Nikita delves into her past when she posed as a nanny for an influential government official and decides to right the wrong of his death. During the mission, Michael comes to Nikita’s rescue and begins to doubt Percy’s motives. Back at Division, while undergoing basic training, Alex suffers from a panic attack which prompts Amanda to break her of claustrophobia.

Percy and Michael take their latest assignment, a Slavic leader wanted for war crimes, into protective custody. Nikita learns of their hideout and attempts to thwart their plan, but a mysterious group of mercenaries in search of nuclear material beats her to the task. Alex is activated earlier than expected for a special assignment that throws her into the crossfire of bullets. A flashback reveals a pivotal moment in Nikita's life.

Nikita and Michael temporarily team-up to kill a terrorist who murdered Michael’s family many years ago. When Percy learns this information, he sends Division agents to kill Nikita, who ultimately compromises the mission, leading to Michael’s capture by the terrorist group. Alex is caught going through medical files inside Division so she creates a lie that involves Jaden and almost blows her cover.

Owen leaks secret information from Division’s black boxes to the media, revealing that the U.S. Government was responsible for an assassination in Chile. As a result, Percy frames a C.I.A. agent, Ryan for the crime. Nikita and Owen go to Chile to rescue Ryan from mercenaries and in doing so end up getting captured. Nikita reveals the secrets of Division to Ryan in an effort to save all of their lives. Back inside Division, Alex spies on Percy and Birkhoff and witnesses a side to Percy she has never seen before.

Michael discovers Cassandra, a woman he once romanced under Division orders, is in danger. Feeling guilty for how things ended, he wants to help her but Nikita suspects there is more to it than easing his conscience. Amanda manipulates Alex into helping her on a mission but Sean gets caught in Amanda's web of lies and begins to doubt Division's true motives.

Nikita rescues Jill, a journalist who is trying to expose a conspiracy involving Division and a major plane crash. Michael and Percy suspect Birkhoff of being Nikita’s inside mole and send Amanda in to interrogate him. Meanwhile, Michael enlists the help of the recruits, Alex, Jaden and Thom, to help them locate their latest target.

Divison’s secrets are at risk of being revealed to the world when Owen, a Division operative, escapes from a bank robbery and becomes a fugitive. Percy decides to search for Owen himself, which makes Michael suspicious of his motives. Meanwhile, Alex sneaks into Percy’s office to warn Nikita, but she is busted by Thom. In the end, Nikita and Owen go head-to-head until Percy joins them for a tense standoff.

Alex’s first assignment is a group mission to kill the Prince of Georgia at a museum gala. After Alex tells Nikita about the order, the two devise a plan to foil the assassination. However, Nikita trusts the wrong person and their plans are foiled, resulting in a stand-off and alerting Division that Nikita is in the building. Percy sends Michael in to kill Nikita.

Nikita steals funds from Oversight, forcing them to host an emergency meeting. Nikita and Birkoff figure out how to spy on the meeting so Nikita can identify the other members of Oversight, but things go awry and Birkoff gets captured. Amanda demands to know where Nikita is hiding but Birkoff refuses to give up his friend so she tortures him. Meanwhile, Alex sets her plan in motion to reclaim her father’s empire. With a price on her head, Alex realizes the easiest way to get into Russia undetected is the same way she was smuggled out – through the illegal sex ring.

Nikita and Michael try to help Carla remember her past, which holds the key to taking down Division. Carla recounts the night Nikita was arrested and Nikita is stunned at what she learns. Meanwhile, Alex shows up at a Zetrov press conference where Semak is speaking and announces that she’s Alexandra Udinov. Alex demands a trade – her mother for the empire.

When she was a deeply troubled teenager, Nikita was rescued from death row by a secret U.S. agency known only as Division, who trained her as a spy and assassin. Nikita was eventually betrayed by the only people she thought she could trust. Now, after three years in hiding, Nikita is seeking retribution and making it clear to her former boss, Percy and her former friends Michael and Birkhoff that she will stop at nothing to expose and destroy their covert operation. Division continues to recruit and train other young people, among them Jaden and Thom, erasing all evidence of their former lives and turning them into cold and efficient killers. One of these new recruits, Alex is a beautiful girl with a violent past and a story not so different from Nikita's. The recruits all spend part of their training with Amanda, a master manipulator who can turn any ugly duckling into a swan and any bleeding heart into a killer.

A bus filled with Division recruits is attacked by terrorists who kidnap Alex and Thom, both of whom are unaware that this is a test by Division. Percy, Michael and Amanda watch as Alex is tortured. Alex breaks free and contacts Nikita for help. Meanwhile, Nikita has earned Owen's trust and he reveals some devastating news to Nikita about her fiancé.

Alex informs Nikita that one of the recruits has been activated to carry out a suicide mission.

Now an agent, Alex gets a new apartment and is given a cover job. She meets her new neighbor Nathan who invites her to a party at his house. Nikita warns Alex about getting too involved with people but Alex struggles between her duties at Division and living a normal life. Nikita realizes Division has implanted a kill chip in Alex's head and sets out to gain control of the chip. While interrogating Birkhoff, Nikita stuns Ryan by revealing a secret.

While investigating an old corrupt Division program, P9, that seems to have resurfaced, Nikita and Michael run into Owen. He tells them he is searching for Dr. Joseph Mars, who is not only the mastermind behind P9, but also invented the Regimen and could help Owen wean himself off the dangerous drug. Michael is hesitant to trust Owen again but Nikita decides the three should join forces. Percy demands to see Alex.

Ryan intercepts information about a dangerous new weapon coming into the U.S. and asks Nikita to help him prevent its delivery. Nikita learns that the man bringing the weapon into the country is Voss, a man Division forced her to have a relationship with while working undercover. She reluctantly resumes her alter ego to prevent the weapon from being delivered. Meanwhile, Michael interferes with Alex's relationship with Nathan.

Birkoff tells Nikita and Michael that a black box file reveals that an international terrorist named Ramon, who has been taking credit for some serious political assassinations, now works for Division. This news upsets Nikita since she was the agent that captured Ramon years ago and turned him over to Percy. Amanda convinces Alex to kill Anton Kochenko, a man who used to work for Alex's father, and plans to let Ramon take the credit for the murder. However, when Nikita disrupts Amanda's plan, Amanda fights back by taking what Nikita loves most.

Nikita is stunned when she hears that her old Division partner Kelly escaped from a Turkish prison. Nikita thought Kelly died years ago and always felt responsible because it happened on the mission where Nikita escaped from Division. Knowing Amanda will go after Kelly, Nikita tells Michael they have to go to Turkey to help her. Amanda sends Alex and Roan to Europe to stop the former partners from reuniting.

While searching for information on the black box, Birkoff stumbles upon Nikita’s birth certificate. Nikita and Michael track down Nikita’s father Richard, but the reunion is not quite what Nikita expected. Percy tells Alex that the black box that Nikita has contains information that could help her avenge her father’s death.

When a former undercover Division agent, Markov, is elected President of Uzbekistan, Nikita and her team decide to capture him during his visit to the United States.

Ray (Matt Bushell), a rogue agent, kidnaps his girlfriend Kate (Anna Hopkins), so Ryan dispatches the team to rescue her. Nikita is confused when Michael sends Owen into the field with her instead of going himself. Meanwhile, Sean makes a decision about Alex.

Alex informs Nikita that Division is sending her on her first mission to kill the leader of a crime syndicate. Alex is uneasy about taking someone's life but is reassured by Nikita who insists on helping her with the kill order. Birkhoff informs Percy and Michael when he discovers the shell program that a Division mole has been using to connect to Nikita in the outside world. When the mission doesn't go as planned, Nikita makes a quick decision in an effort to clear Alex's name. Inside Division, Jayden attempts to reveal Alex as the mole but Thom steps in and a shocking accident clears her name.

While out on a mission for Division, Alex runs into Irina, a woman from her past. Alex tries to help Irina break free from her captor, but her old friend double crosses her and turns Alex over to Vlad, a Russian mobster, with a debt to settle. Nikita realizes Alex is in trouble and sets out to save her but runs into Michael who is searching for his missing agent. Realizing she can’t compromise Alex’s secret, Nikita must find a way to work with Michael to save Alex without getting her friend killed by Division.

Owen returns with information on one of Percy’s black boxes. Nikita returns to London with him to retrieve it but notices that Owen is acting strangely. Owen tells Nikita that he wants to release the contents of the black box and when Nikita disagrees, he turns on her. Meanwhile, Percy finds out Nikita is in London and dispenses Michael to kill her. Also, Amanda overhears Jaden arguing with Alex about the escape tunnels so she hooks Alex up to a lie detector to get the truth out of her once and for all.

Nikita and Michael plot to take down Division and Oversight and are prepared to use the contents of the black box to do so. Amanda is now running Division but Oversight has assigned one of their own, a new agent named Sean, to keep an eye on her. Amanda's first mission is to get back the black box from Nikita, and she enlists Alex's help to do so. Alex refuses until Amanda tells her she will help her find the man who killed Alex's father. Meanwhile, Nikita and Michael find help from an unlikely ally.