Gunny takes Webb to a hospital, Harm and Mac survive a "hard landing", and they all rejoin in the city. Harm and Mac chase the Islamic drugs-and-arms dealer but fail to catch him; the two continue to examine and discuss their relationship.
Webb, Mac, and Harm return from Paraguay. A sailor became MiA in the Gulf War 12 years before, and she reappears as a member of a nomadic tribe. Bud investigates in Iraq, then he prosecutes, and Mac defends. Harm interviews with the CIA.
A Marine faces a charge of dereliction after becoming lost in Iraq in a sandstorm; Sturgis prosecutes, and Mac defends. Harm flies again for the CIA, aboard a spy plane for a training hop, which turns into a real mission over North Korea.
With foreign civilian passengers Harm and Beth land a damaged C-130 aboard USS Seahawk. A Navy seaman, having converted to the Islamic faith, stands accused of taking part in al-Qaeda activities; Sturgis and Bud prosecute, and Mac defends.
Cdr. Imes never passed a bar exam; she goes on trial for fraud and conduct unbecoming; Sturgis prosecutes, and Mac and Bud defend. Harm flies as a crop-duster. Coates tries to get the admiral to take Harm back. Harm and the admiral meet.
Sturgis helps a US submarine with 10 survivors of the sinking of a North Korean midget submarine, and Harm helps (as do Mac and the admiral) an underprivileged WW2-era Navy veteran with a legal problem. Harm stays in touch with Mattie.
A Marine helo gunship intervenes during a standoff at a ranch; Mac prosecutes the pilot, and Harm defends. Bud investigates a Naval Reserve physician who, a conscientious objector, has received his medical education at Navy expense.
A Marine lance corporal claims to have shot an Iraqi PoW in the back of his head; Mac and Bud investigate; Bud prosecutes, and Mac defends. The victim was an informant whom the CIA had planted. Harm and the admiral attend a conference and a Navy-Marine all-star baseball game in Los Angeles; during the game a pitcher hits a batter in his head, causing a concussion. The manager of the injured man's team, who is also his father, charges the pitcher with an assault with intent to cause grievous bodily harm; Harm prosecutes, and the admiral defends. Harm stays in touch ...
A sailor dies at sea; another sailor is blamed; Harm and Mac investigate; Mac prosecutes, and Harm defends. The admiral asks Coates to plan the wedding, but she overdoes. Harriet coordinates for a USO Christmas tour, and Mike meets a girl.
Harm's petition for a guardianship meets ups and downs; Mac tries hard to help. The admiral has trouble with a gift for Meredith, and Coates lends a hand. Sturgis stews, and he meets a new friend; his father preaches a Christmas sermon.
The stone in Meredith's engagement ring leads to an underworld industry, an inside man at the Naval Research Lab, an arrest, a conviction, and more investigations. Harm takes custody of Mattie, and the admiral makes a shattering discovery.
A seaman stands accused of murder and attempted rape of an ensign; Harm prosecutes, and Mac defends and figures it out. A commander goes to a preliminary hearing for fraud and larceny; Sturgis prosecutes, and Bud defends. The admiral hurts.
In Iraq two F-14 Tomcats bomb a hospital, which Iraqi forces have turned into a bunker; 32 civilians die. The SecNav stands trial in the International Criminal Court; Harm, Mac, and Bud defend him. Little A.J. disappears and reappears.
A Hornet crashes on the flight deck of a carrier, and the pilot dies instantly, apparently by suicide; his squadron commander is accused of dereliction of duty. Harm and Bud figure it out. Harm, Coates, and Mattie deal with the Dragon Lady.
The CIA's diamond expert van Duyn has disappeared along with 24 of the Navy's synthetic diamonds. Sadik Fahd has returned and is planning new terrorist attacks.
A discharged Marine is recalled to active duty to stand trial for the unauthorized wearing of a Silver Star; Harm prosecutes, and Mac defends. The admiral sends Mac to see a shrink. Bud loses a snake. Harm and Mattie have ups and downs.
After dinner at a Chinese restaurant the gang takes part in a round of what might have become if the various people had set out on different roads. They wind up at a party at Harriet's castle, and they see one another in a different light.
Mac discovers the reason for a false positive result of a drug test for an angry woman enlisted Marine, and Harm and Bud represent a senior chief petty officer who is HIV-positive, and whose privacy has become compromised.
During a guest sermon a Marine general has made remarks about the Islamic faith; this publicly boils into a court-martial; Mac prosecutes, and Harm defends. Bud investigates a complaint of racial bias against Sturgis, and he resolves it.
A kilo of heroin disappears during the seizure of a foreign ship. Harm and Mac investigate; they find the missing kilo, then they find the culprit. Bud helps a Marine with a recording contract who now must deploy. Bud and Mike talk again.
Webb dies in a Navy boat during a storm. Mattie reconciles with her father, who was not drunk in the wreck. The admiral throws a dining out, and he gives shoulder boards to Bud. Harm and Mac have a serious talk, and she gives him some news.