The team investigates a homicide case that puts the blame of Pride's Navy Intelligence friend Elvis in the middle. Meanwhile, the FBI continues to internally investigate Pride's team following Brody's departure and Russo's death. The FBI takes over the case, despite a victim being a Navy officer, but Pride's team refuse to budge and find key evidence, forcing the FBI to collaborate. Pride's friend Elvis manages to find the true culprit and prove his innocence. Gregorio is ordered to work with NCIS to bring down the cartel.
The team is put in a difficult position to help rescue a Navy Petty Officer who is being held captive in Mexico. Meanwhile, Gregorio is put in a tough spot when she begins to work with Pride's team and reports back to headquarters about his team's actions.
Pride and his team investigate a plane crash that killed six Petty Officers which later turns out to be murder and involves the CIA. Meanwhile, LaSalle and Percy interview candidates to replace Brody. Also, Gregorio considers staying in New Orleans or returning to D.C.
When a SEAL-in-training is found dead after he is reported UA, the team discovers a dark secret he was hiding about his past—and a conspiracy that goes up to Mayor Hamilton. Meanwhile, LaSalle tries to evade an old flame, who has a big surprise for him, and Dr. Wade tries to get Pride to convince Danny to go to college rather than join the Navy.
The team investigates the murder of a biker who is a sailor from Mississippi and later find that it might be the start of an old rivalry between two biker gangs. Percy goes undercover to find her old informant who is working for one of the gangs. Meanwhile, Gregorio encourages LaSalle to talk to Pride about his new found fatherhood.
A Petty Officer, who is a member of the prestigious Navy band, is found murdered and her nephew is the only witness to the crime. Meanwhile, Gregorio considers staying in New Orleans or returning to Washington D.C.. Also, Percy finds out about LaSalle's child and Sebastian considers applying to be an NCIS agent.
The team investigates a Marine, a race car enthusiast, who is killed in a fatal accident but Pride suspects foul play. Meanwhile, LaSalle receives news that Tucker is not his son and his real father is coming for him. Despite the lie, LaSalle decides to help Melody get safely away from him. At the FBI, Gregorio is helping Assistant U.S. Attorney Hannah Lee build a case against Garcia, while trying to help the NCIS investigation at the same time.
Pride and his team investigate a family friend's missing fiancée who is also a leader in a major drug smuggling cartel. A conflict of interest arises when it is discovered that the cartel was being investigated by Gregorio and the FBI.
Pride takes matters into his own hands without the FBI to catch Garcia. The team volunteers to help knowing the consequences of their involvement. Pride suggests that Sebastian to go undercover to take down Garcia. In the end, Garcia is captured and Gregorio officially joins NCIS.
Pride's team work around the clock to save Pride from an oil rig as he tries to capture suspected murders that work on the rig from a major explosion. Meanwhile, Gregorio begins her first day as an NCIS agent and Sebastian starts his training to be an NCIS agent.
The team searches for an expert computer hacker associated with "The Collective", a hacktivist organization founded by Elvis after four people are killed and incriminating videos involving prominent city officials are released.
At the behest of Special Agent Leroy Jethro Gibbs, Agents Timothy McGee and Nicholas Torres travel to New Orleans to assist Pride and his team in the retrieval of a stolen terror playbook; an operation assisted by Torres and Gregorio from the field position.
The team investigates the grisly murder of a petty officer in which Loretta comes to realize that this might be the same killer that she testified was sent to prison 20 years ago and was recently released and might want revenge. Later on, the killer is captured but claims to be innocent so Pride looks into the last murder and suspects that the "killer" had been framed both times.
Pride's longtime friend, state and military attorney Rita Devereaux asks NCIS to investigate the disappearance of a JAG lawyer who specializes in classified cases and volunteers at a private military academy.
Pride's team goes on a manhunt to capture a highly skilled Marine with no criminal history after he assaults six civilians in a bar. However, the case becomes more complicated when it turns out the Marine's wife has been abducted by a woman's trafficking ring.
Gregorio's ex-husband, who disappeared after embezzling more than $80 million dollars from the Hurricane Katrina relief fund, comes to New Orleans after Pride's team found a connection with him and a murder investigation.
While investigating a deadly accident at a naval base, NCIS discovers a unit of Seabees was poisoned with a contagious super virus leaving the rest of the base and the entire city of New Orleans at risk for a catastrophic outbreak. Also, during the autopsy, Wade is infected with the virus and given hours to live if an antidote can’t be found.
LaSalle's old partner at New Orleans Police Department's Vice Squad comes under investigation when drugs from NOPD evidence lock-up are discovered to be on the streets and smuggled onto a Navy ship. Pride and Rita discuss their relationship as Rita delves into Hamilton's connection to the impoverished Clearwater neighborhood.
Christopher Silber (Story/Teleplay), Katherine Beattie (Story)
Pride is forced to fake his death and go rogue in order to capture Hamilton and confront him about his crimes. Meanwhile, the rest of the team enlist the FBI assistant Director to help track down Pride.