After being severely tortured, Webb meets up with Harm and Mac to find Sadik in Paraguay; Mac goes undercover.
When a female petty officer is found living in Iraq as the wife of a Bedouin sheik, Mac is assigned to defend her; Harm gives his resignation.
Harm must go undercover to prevent a terrorist from taking over the Philipine government; when a cadet is accused of cheating, Mikey (Bud's brother) faces a tough choice.
Mac defends a Marine who may have been responsible for the deaths of two soldiers; Harm goes on a test flight in a spy plane which soon turns into a mission to take photos over North Korea.
The NCIS holds Harm responsible for one of their murder investigations.
Harm goes on a mission to find a CIA agent in Iraq but soon learns that the agent's family must be rescued as well.
Mac confronts her dying father; Harm opts for laser surgery to cure his night-blindess.
The CIA fires Harm and he gets a job as a crop-duster; Harm's replacement turns out to have lied about her credentials.
Harm gets buried in backlogged case files; a submarine picks up a North Korean crew that is endangered by a SARS outbreak.
A marine interferes with local law inforcement during a hostage standoff.
The Navy's star pitcher is charged with assault after hitting a marine with the ball during the annual baseball game.
Harm and Mac investigate the death of a sailor electrocuted on board a destroyer; the admiral assigns Coates to coordinate his wedding.
Harm petitions the court to get custody of Mattie Grace; Turner faces charges of racial bias; Coates tries to pull off a Christmas miracle for Chegwidden and Sims.
When Admiral Chegwidden finds out that his fiancee's diamond might have been smuggled, he launches an investigation into the illegal diamond trade.
Mac must represent a petty officer who has been accused of mudering a female officer while in a drunken rage.
When a Navy fighter drops bombs on an Iraqi hospital, Harm and Mac have to defend the secretary of the Navy against warmcrimes in the International Criminal court.
After a pilot crashes his plane into the deck of an aircraft carrier, Harm must fly a test mission to determine whether or not the crash was an accident or an act of suicide.
Mac plays a game of cat and mouse with the terrorist who nearly killed her in Colombia.
Mac is ordered by the admiral to go see a Navy psychiatrist for post-traumatic stress disorder.
When the gang celebrates Coates' promotion, they begin to fantasize about what their lives might have been like if they had made different choices.
An angry judge orders Mac to escort a female prisoner to California.
When a general is accused of making racist remarks about Islam during a church session Harm and Mac square off in the courtroom.
Harm tries to help a grieving mother of a Marine killed in Iraq when he learns that reporters are hounding her.
Harm and Mac are asked to investigate when Navy SEALs confiscate a shipment of heroin from a Pakistani freighter and a kilo ends up missing.
Mac and Harm get news that Webb was killed; Mac receives devastating health news; the Admiral makes a life-altering change.