After a young woman is killed on her way home from a lavish yacht party, the team investigates who she was and how she came to be at the event, which was attended by some of the most influential people in the world. Also, Maggie brings Crosby into the investigation after a murder suspect is identified as a veteran who had been on several Army operations with Crosby. The crossover continues on FBI: Most Wanted S03E01 Exposed (II) and FBI: International S01E01 Pilot (III).

After Jubal narrowly escapes a calculated assault on a secret FBI office, the team discovers a rogue terrorist group has infiltrated the FBI. Unsure of who to trust, the team must work in the shadows to unmask the culprits threatening the sanctity of the New York field office.

Maggie, OA and the team must stop a hacker who is disabling life-saving equipment in several New York City hospitals. Jubal's son waits for important surgery at one of the impacted hospitals.

OA is forced to confront one of his biggest fears when the team discovers that deadly sarin gas may have been sold to terrorists.

The murder of a TSA agent leads the team to hunt down a killer who is using drug mules to exploit airport security checkpoints. Also, OA struggles to cope with the aftermath of the sarin gas exposure and the 10th anniversary of his army friend's death in Afghanistan.

After Rina is critically wounded while heading to work with Jubal, the team makes the chilling discovery that a vengeful Vargas orchestrated the shooting from behind bars and continues to target the rest of their team and their loved ones.

The team finds a connection between bombings and a private veterans' club in New York City; Isobel tells a reluctant OA to recruit a former Army buddy for intel.

The team must track down a shooter targeting detectives from the same precinct and unit, while facing mounting tension from the NYPD. Also, Tiffany finds that her NYPD roots may be influencing her view of the situation.

After a young girl is kidnapped from her daycare, the team must help her parents navigate a debt owed to the deadly gang in their neighborhood; Maggie struggles to focus on the case when her sister returns from rehab.

The team searches for an abducted college coed; Jubal has a tense encounter with Rina's mother.

When a young couple is found murdered in a New York City park after returning from vacation, the team searches for a suspect linked to the drug trade. Also, Scola turns over a new leaf when it comes to his relationships.

As the team investigates a string of jewellery store robberies that culminate in a double murder, they uncover a connection to a 16-year-old boy trying to survive the foster care system. Tiffany becomes personally invested after learning about the boy's ill-fated upbringing.

Maggie goes under cover working in a bar to investigate an anti-government group that regularly gathers there; a single father on the periphery of the group begins to fear he's in danger of becoming collateral damage.

When a passenger train is hijacked and rerouted while at high speed with an unarmed OA and Gemma on board, the team races to wrest control away from the unhinged perpetrators and prevent a catastrophe.

Maggie and Dana struggle to find justice for victims murdered by a serial killer who left a ghoulish mark on all of his victims, while the mayor limits the investigation in order to prevent economical loss.

The team hunts for a serial killer who is targeting young, homeless men. Also, Tiffany and Scola don’t see eye to eye on how to handle the case or the difference between partners and co-workers.

When a Muslim college student and his younger brother are murdered, the team connects with the outraged imam of OA's former mosque, who insists the victims were wrongly targeted as terrorists.

The team realizes they have a cross-country serial killer on their hands; the case has ties to Isobel's father, Robert, and his hotel, leading to revelations about their fractured relationship.

After an immigration agent is fatally shot at a hockey game, the team attempts to find the shooter, who they believe may also be targeting Congressman Curtis Grange, who was at the same game.

When a morning show host is murdered inside her home, the team tracks the killer, who they realize is targeting powerful women. Also, things become awkward for Scola when Special Agent Nina Chase becomes part of the team during Maggie's recovery.

When a CEO is killed by a targeted explosion inside his penthouse, the team must work to figure out how someone accessed the highly secure building. Their task is further complicated when they discover the crime may be the work of an artificial intelligence program. Meanwhile, Maggie pumps the brakes on her personal life.

When the leader of a drug cartel and one of the world's most wanted men, Antonio Vargas, is apprehended by the team, the entire FBI headquarters is put at risk when his henchmen unveil a terroristic threat to free him. During the turmoil, Isobel must make the difficult decision whether to sacrifice her conscience or her career.

A woman with information about the death of Maggie’s husband is abducted, leading OA and the team to uncover a criminal operation larger than anyone imagined. Also, Dana puts her career in jeopardy when she stands by and allows Maggie to work on this case that has such a personal connection to her.

A car crash results in the death of a photographer; Maggie sympathizes with his widow when she notices similarities with her own husband's death.

After a truck filled with armour-piercing rifles is hijacked, the team works to discover who stole it, and what they have planned for the stolen weapons. A friend from OA's past returns to help with the case, but OA isn't sure he can trust him.