NCIS agents Nick Torres and Jessica Knight travel to Hawaii with Jane and Ernie, the Washington DC and NCIS: Hawaii teams reuniting and working together to track down the man responsible for framing Torres and Knight's boss, NCIS Special Agent in Charge Alden Parker. They later find themselves stopping an attack targeting military personnel on RIMPAC (The Rim of the Pacific Exercises), the world's largest international maritime warfare exercise occurring in Oahu. ----
When the remains of a Marine Staff Sergeant are found at a junk yard in a car that was about to be crushed, the team investigate the circumstances surrounding the death and soon find themselves entering the world of illegal street racing. Meanwhile, Jane is concerned about the behavior of her son, Alex. Also, Whistler is hesitating about introducing Lucy to her co-workers.
When a Navy officer dies in a car accident, the team discovers the officer in question still alive and that the woman pretending to be her was in fact an imposter. Whistler volunteers to go undercover to learn about the incident, a move that ultimately puts her in great danger.
When a Navy sailor's body washes up in a sacred kapu site, the team reunites with Coast Guard Special Agent Neil Pike to find a possible serial killer operating on the island who's literally scaring his victims to death. Meanwhile, Jane finds herself meeting the new girlfriend of her son.
During the investigation into the death of a Navy sailor, the team finds themselves going up against a ruthless criminal organization.
When a Marine corporal dies in a tide pool after being exposed to fentanyl, the NCIS team must quickly find the source of the drugs; Alex talks to his parents about taking a gap year; Ernie reveals personal news to Lucy.
When a young woman disappears leaving her son behind, the team searches for her, only to discover she's not who she appears to be.
When a Navy officer who was moonlighting in community theatre is murdered, the team recruits an ally to help them with the investigation, leading them to a ruthless international killer. Meanwhile, Kai asks Whistler for her help in opening an investigation into one of his friends who's become a criminal.
The team searches for Commander Chase after she's kidnapped by an Army Ranger, who is suspected of killing a DEA agent while facing a hostile reception from the murdered agent's DEA colleagues, who believe the Army Ranger in question is guilty of carrying out the killing.
Tennant and DC medical examiner Jimmy Palmer, along with Los Angeles agent Sam Hanna, are kidnapped and held prisoner by a woman claiming to be a CIA agent investigating Simon Williams. Meanwhile, DC agent-in-charge Parker works with the Hawaii branch to find their missing teammates. They have a similar situation with a CIA agent, who turns out to be an imposter. The team eventually discovers that Simon Williams is the name for a computer program responsible for years worth of data, and that any
The team investigates when CGIS Special Agent Neil Pike is ambushed while working undercover for a local Japanese crime family and race to find his attacker. Meanwhile, Kai digs deeper into AJ Hale, his childhood friend who's now become a criminal.
The team investigates when a Marine captain, who was also a member of an elite special forces unit, is murdered with the team soon discovering a possible suspect in an unusual place.
After escaping an explosion at a meth lab, the team learns that Kai is now the target of AJ Hale and must take Hale down once and for all before he strikes again. Meanwhile, on the aircraft carrier, Lucy finds herself investigating her first major case as Agent Afloat.
The team investigates when a captain and his wife are murdered with the deaths bearing similarity to a case they investigated in the past. A former member of the team is brought in to determine if the murders are a copycat killing.
When a Navy deserter accidentally comes out of hiding, his family becomes a target that drives the NCIS team and Charlie 1 to investigate who is after them. Meanwhile, Lucy surprises the team by returning to Hawai'i from her agent afloat job early.
Navy residents living in a neighborhood area discover their vehicles have been burglarized overnight and as the team investigates the crime, they find an unlikely person is responsible. Meanwhile, Whistler struggles to deal with a CI of hers who's being uncooperative. Also, Alex weighs up his options for college.
Navy Captain Joe Milius returns to Hawaii to ask the team for helping in arresting a dangerous high-value target with the assistance of an unusual informant. Meanwhile, Jane and her ex Daniel struggle to deal with the fact that their son, Alex, has been accepted into the Naval Academy.
When a helicopter containing Jane and a suspect she's been interrogating crashes killing the two pilots, Jane fights to survive in a hostile environment while using her skills to save the lives of herself and the other passengers while her teammates desperately begin searching for her.
When an astronaut participating in a highly sensitive Mars simulation dies in mysterious circumstances, Ernie is sent to the program to investigate and uncover the truth of what happened.
The team searches for a man who in a strange phone call to Lucy admitted that he had committed a murder.
When a former MI6 agent is murdered, Jane realizes secrets from her past have been exposed and goes to great lengths to track down the murderer.
When a figure Jane encountered during her time as an officer with the CIA reappears, she and her colleagues seek help to apprehend a killer who's threatening to destroy everything she has built, receiving assistance from Sam Hanna of the Los Angeles OSP.