Due to the transposition of two digits of a phone number, Lt. Austin receives a fax with the itinerary for a person with the codename 'Shepherd'. Later, a Commander from the Royal Navy shows up demanding that paper. After receiving it he shoots Meg, seriouly wounding her. Trying to find out who this 'Shepherd' is and why this document is so important, they end up chasing an assassin named 'Hemlock' apparently working for Russian hardliners and trying to kill the man behind 'Shepherd'

- Boris Yeltsin who is due in the US for a secret treaty signing. Locations: Washington, D.C.; Bethesda; Leesburg, Va.

Harm is called in to probe the death of Navy pilot Lt. Marion, son of US Senator Grace Marion, while training with the Navy SEALS. As he was there only for two days, it seems that the death was due to gross negligence. With the reports given by his superior and comrades, combined with the results of how how he died, it seems that the actual incident is a cover-up. Analyzing his equipment and learning that it was a combat mission (and not a training mission as stated), the facts then point at murder. The key to all this could be General Behnke. Locations: Washington D.C.; NAS Roosevelt Roads, Puerto Rico; Carribean Sea; Colombia

Harm risks his life to prove that an F-14 squadron is not jinxed after there have been six fatal mid-air accidents, including one that killed his best friend. During Mac and Harm's investigation into the ""curse"" of the squadron, they learn that the rumor of a jinx stems from an accidental bombing of an Iraqi mosque during Desert Storm. Now only one of the fliers involved in the bombing is left, and Harm has no choice but to fly with him in order to restore the squadron's confidence. However, when a mid-air refueling goes awry and Harm is seriously injured, it seems that the squadron may be jinxed after all.

Harm & Mac are sent to Belfast, Ireland when the child of Navy Lieutenant Nivens suddenly turns up missing and a note left behind indicates it was taken by Lorcan Barnes of the Irish Republican Army (IRA), who also happens to be the child's father.

Arriving in Belfast, Harm & Mac are immediately at odds with the Royal Police, when they suggest ""negotiating"" with the IRA for return of the baby. Not finding much help, they go and search out the IRA on their own. Directed to a bar & told to ask for a particular type of beer. While playing darts, a man showing Mac the proper way to throw a dart whispers in her ear to go to an abandoned storefront. With the Royal Police tailing them, Harm and the baby's mother risk going to the storefront, while Mac boards a bus and leads the Police away from Harm.

The JAG team discovers an evil plot by a rogue CIA agent after two attempts are made on Admiral Chegwidden's life.

After Harm and Mac uncover the fact that all the members of the admiral's former SEAL team have recently died under mysterious circumstances, the JAG team learns that Chegwidden and his team were part of a CIA-controlled SEAL mission during the Vietnam war. Suspecting that the murder attempts may be connected to the mission, they start an investigation that leads to the rogue agent's plot to eliminate all witnesses to a terrible incident that occurred during the mission. But when the assassin kills Chegwidden's girlfriend, he decides to take care of the job himself -- even if it means losing his stripes.

Harm goes undercover as a Marine gunnery sergeant to help Mac in her investigation of questionable Marine training methods and becomes a victim of unsafe maneuvers himself.

While undercover, Harm learns that the tough-as-nails officer in charge of Force Recon training, Capt. Koonan, introduces unexpected problems into the training missions as a means of teaching the men to react quickly to surprises during combat. In addition to testing the Marines' mettle, the method also doubles their chances of returning safely from combat. However, in the mission in which Harm is involved, the method backfires dramatically, leaving five men trapped in a training maneuver destined for a disaster that even Capt. Koonan can't reverse, and it's up to Harm to get the trainees -- and himself -- out safely.

Hospitalized with a knee injury, Harm is forced to take action when the Hamas, a terrorist Islamic Resistance group, takes the hospital hostage.

An Israeli diplomat undergoing a heart transplant provides the Hamas terrorists with the perfect negotiating tool. They take over the operating room -- as well as the entire hospital -- and use the diplomat as leverage while demanding the release of one of their imprisoned leaders. Meanwhile, Mac is trapped in the hospital cafeteria trying to negotiate with two terrorists.

A top female helicopter pilot is accused of disobeying an order---to cease her affair with a married enlisted man, and a Congresswoman is determined to ensure the pilot's fair treatment as a potential court-martial looms.

When a former Vietnam POW arrives at JAG headquarters to report a murder he's just committed, Harm confronts a very complex individual who may know something about his MIA father.

When Willie relates the fact that he was imprisoned with Harm's father and then blindsides Harm by claiming that his father was a turncoat, the information has a profound effect on the JAG lawyer. Willie, a very complex individual, has been waiting 30 years to tell his story in his own way. Ultimately, Harm finds out that Willie's murder victim was the contemptible, sadistic commander of the POW camp where Willie had been -- but that's just the beginning of Willie's incredibly sad war story.

Harm & Bud are sent to Twenty-nine Palms Marine Base to investigate the mid-air collision of 2 helicopters & subsequent crash of one helicopter which killed the pilot.

Upon arrival at the crash site, they learn that the ""other"" aircraft was not another helicopter as was first thought. A piece of wreckage that is found that belongs to the ""other"" aircraft only deepens the mystery. When members of the Defense Security Division appear onscene with orders to take over the investigation and crash site, Harm becomes convinced that a major cover-up is in the works.

The base commander, Col. Barrett gives Harm time to investigate further. When Harm & Bud are out driving the base at night, they see an unknown type aircraft flying above them and follows it, but are soon blocked by a fence over the road marking the property of the ""Bradenhurst Corporation"".

Annie Pendry, a widow, comes to Harm for help after her young son, Josh, witnessed a murder while on a class trip to Andrews Air Force Base. After Harm and Josh are the targets of a drive-by shooting, Harm moves Josh and Annie into his apartment -- and into his life. Harm discovers that the original crime and the drive-by shooting are tied to a ruthless international arms dealer, but not before Josh is kidnapped by the dealer in order to silence him as a witness.

When a luxury yacht owned by a reputed South American drug trafficker mysteriously sinks and the Navy is suspect, Harm, Mac and Bud are put on the case. Meanwhile, Artemus Sullivan, a World War II Navy veteran, with the help of his aged cronies, devises plans from a nursing home to make sure the drug dealer responsible for Sullivan's grandson's death is brought to justice. But when Sullivan is kidnapped by the drug dealers, his mettle is tested, as is that of Harm and his team as they race to rescue the war hero.

When Harm takes young Josh on a weekend cruise for Navy families aboard the frigate, pleasure turns to fear when the ship is taken over by terrorists who intend to fire missiles at Cuba. After Josh and Harm manage to elude the terrorists, they try to contact authorities about the situation. But the plan goes awry when Harm is found out, and he then tries to strike a deal with the terrorists while also racing to foil the plot before the innocent civilians get hurt.

Clark Palmer, a renegade government agent, breaks into Harm's apartment and incapacitates him. Palmer then makes a cast of Harm's face in order to prepare a mask that he can wear to pass for Harm. Palmer plans to murder the key witness in the trial at which Harm and Mac are currently prosecutors.

When Harm doesn't show up for the start of the trial, Mac takes his place, leaving Bud to search for the missing JAG lawyer. When Bud finds Harm trapped in an ingeniously booby-trapped apartment, the two must find a way to escape before the assassin can carry out his plan.

Having been shot at by Russian fighters, Mac & Harm are forced to eject from their plane, which then noses into the bottom of a very deep lake. The Russians announce to the world that Harm & Mac have been killed, which is broadcasted back to the USA by ZNN reporter Chuck DePalma.

Webb tries to convince the Admiral that they have been killed, but when A.J. learns their bodies haven't been found, A.J. becomes irate and vows to go to Moscow himself to look for them. The SecNav orders A.J. not to go, who replies that the SecNav doesn't want to try & stop him.

In Russia, A.J. meets with DePalma who tells A.J. that he doesn't believe the Russians, that certain things in their story don't add up.

In the woods, a husband & wife gypsies come across Harm & Mac. They are disappointed when they learn that Harm & Mac are not American Spies as at least the spies have gold coins to give to Russians that help them.

Millions of viewers are turned into witnesses when they see a Marine guard shoot an arrested terrorist on live television, and its Harms job to defend him. With Mac on the prosecution, she and Harm are pitted against each other in what seems like an open and shut case of cold-blooded murder. But when Harm is replaced by a civilian attorney with a defense plan that doesnt add up and whose fees are being paid by a wealthy right wing industrialist, Percival Bertram. Harm decides to do some investigating of his own.

Mac is arrested and placed on trial for a major felony, along with her former commanding officer and mentor, Col. John Farrow. Conviction could result in long prison terms.

Harm volunteers to defend her, but his efforts are thwarted by Farrow's defense attorney, JAG exchange officer, Australian Navy Commander Mic Brumby. Harm feels that neither defendant has come clean with the truth and he begins to search for evidence which is not forthcoming from either one. Ultimately, he learns that Mac and Farrow have each been trying to protect the other. The key witness in the case turns out to be a major surprise to both defendants.

Numerous power outages & a ruptured steam line injuring a sailor sends Mac & Harm to the aircraft carrier USS CORAL SEA. While there, they discover two civilian technical representatives onboard and their plan to steal over a million dollars in cash from the Disbursement Office vault; as well as their plan to smuggle it off the carrier. Adm. Chegwiggen helps a former juvenile delinquent who became a decorated SEAL face his leukemia.

Harm fears he's losing his mind when he begins to see and hear his deceased father. Worried that he may be going insane, Harm finally confers with his Navy psychiatrist girlfriend who tells him she's treating a Marine officer with similar symptoms and suggests that Harm isn't experiencing anything unusual for someone who's lost a loved one under stressful circumstances. But before Harm can come to terms with the visitations, he begins to suspect that there's something more sinister involved that could cost him more than just his sanity.

As Harm considers his future at JAG, he learns that Charlie Lynch -- the ex-Navyman responsible for the murder of Annie, the abused child whose death still haunts Harm -- has resurfaced, placing the little girl's twin sister, Dar-lin, in danger. Putting his career decision on hold until he closes the chapter on Lynch, Harm tracks him to a shipyard where the vicious killer is holding Dar-lin hostage. Overflowing with anger against all Lynch's grisly acts of murder, Harm finds himself in an intense stand-off with him that will leave only one man standing.

Harms fitness report is coming up and the realization that maybe it really is too late to be a fighter pilot.

During a dangerous mission over hostile Serbian territory, Harm's wingman's plane is shot up and Harm performs top-gun maneuvers to keep the disabled plane aloft until it's over friendly territory.

Meanwhile, with a new Gunny in the office, Bud & Tiner fall over themselves as they compete against each other in an online auction to purchase tickets to a concert, in order to impress the Admiral. They end up looking foolish when it is discovered that the Gunny got the same tickets for free.

When a Navy research project involving psychic phenomena goes awry and results in the death of one of its research subjects, Harm defends the admiral in charge of the project. As Mac prosecutes, she steadfastly proves that the admiral's ESP theories are wrong. But when her friend Chloe disappears and Mac experiences a vision that could save her life, she begins to have second thoughts about the paranormal.

Harm and Mac stumble upon a miscarriage of justice in a 10-year-old case when they tutor a group of law students in a mock trial.

In the original case, an investigation team headed by Admiral Chegwidden concluded that a disgruntled gun captain caused an explosion that killed 29 sailors, including himself. But when the ""defense attorney,"" helped by Mac, and the ""prosecutor,"" helped by Harm, retry the case, a new witness and new evidence are uncovered, prompting Mac and Harm to request that the original hearing be re-evaluated.

At the request of Lt. Cmdr. Brumby, Admiral Chegwidden sends Harm and Bud to Australia to represent a U.S. Naval officer, Kevin Lee, who has suddenly surfaced 28 years after being "murdered" by an Australian sailor. Lee contends that he accidentally killed his Australian nemesis years ago and, in a panic, exchanged identities with the dead man.

Now, charged with both deserting and murder, Lee is to be tried in an Australian court, pitting Harm against Brumby. Harm and Brumby are also about to go head-to-head outside the courtroom when Mac appears in Sydney and Brumby decides it's time to make her choose between him and Harm.

The murder/desertion trial of Kevin Lee takes a bad turn after his wife changes her testimony under cross examination.

Harm and Mic fights to win over Mac

Harm and Mac are assigned to investigate charges that American GIs shot and killed civilians during the Korean War. They board a plane for Korea, along with a veteran who claims to have participated in the shootings. Korean terrorists take over the plane and insist on punishing those responsible for the alleged war crime.

Mac goes undercover to help Harm investigate charges of sexual misconduct against Chief Petty Officer Merker who is the leader of the Wiccans, a local witches coven with many Navy members. The female seaman who brought the charges claims she was seduced when she fell under the man's spell, but Merker claims the sex was consensual. The Wiccan's attorney is sharp and claims his client is the unfortunate victim. However, Mac learns that another young woman suffered the same fate. He convinces her to testify and Merker is found guilty.

Later, Mac learns that Mic Brumby was also thrown into a compromising position while undercover in the Royal Australian Navy.

Harm reopens a 10-year-old murder case and unexpectedly incurs the wrath of the victim's daughter, his friend Lt. Cmdr. Teresa Coulter (Trisha Yearwood). Harm feels that the original trial attorney didn't dig deep enough into the case and as he pursues the investigation a new picture begins to develop.

When the captain of a U.S. Navy frigate rescues a young girl in Cuban waters and sets off the beginnings of an international incident, Harm and Bud's investigation leads them to Cuba and a meeting with Castro.

Mac is assigned to represent an Arab princess not only at an INS hearing but also before an Islamic court, when the woman elopes with a Naval Petty Officer who is accused of smuggling her into the United States.

When AJ talks to Dr. Walden about what happened to his car, she is appalled that AJ would accuse her son of impropriety & terminates their relationship. Danny Walden is quite smug to AJ that he had been able to break them up -- which will come to haunt him later. With his car still being held by the police, he is dismayed with driving a rental car.

Harriet goes into labor 4 weeks early and a seemingly positive childbirth turns sour when it is discovered that the baby's head is pressing against the umbilical cord cutting off blood supply to the baby and her doctor (Dr. Gettis) is nowhere to be found. As another doctor steps in, Harriet is wheeled to the operating room in an attempt to save the baby.

At Christmas time, while everyone else at JAG is enjoying the happy time of the season, Bud & Harriet are at little Sarah's gravesite unveiling her headstone that has just been placed. Bud vows that it just can't end like this and insists on finding out what happened. Bud & Harriet approach Mic to have him represent the Roberts in their case against Dr. Gettis. Mic warns Bud to stop, leading Bud to realize that Mic can't represent them, as his practice is representing Dr. Gettis. Harriet tries to talk Bud out of pursuing the case, but her pleas are ignored by Bud.

Mac is assigned the case by the Admiral despite Bud's plea to be the lead attorney. Even though he is ordered to stay away from the case, he nonetheless can't. Mac questions Dr. Gettis as to why he took so long to respond when Harriet labor was in trouble. Dr. Gettis claims that his pager battery had died & didn't realize he was needed until he heard the overhead page for him.

Harm defends a Sergeant Major accused of the attempted murder of his wife. However, the Sgt. Major claims that he was concerned when his wife didn't come home, went out looking for her & was led to her location by the vision of a deceased chaplain from his old Vietnam unit. His defense attracts a representative of the Vatican which is considering the deceased chaplain for Sainthood.

Meanwhile, when Tiner hooks up a new screensaver that searches for extra-terrestial life on the Admiral's computer, it stirs excitement when it starts making weird noises.

When Gunny goes to New Mexico to bring back a Korean War hero accused of desertion, he is ambushed by people trying to kill the man.

A Marine sergeant in prison needs Harm's help again when his prints are found on a murder weapon.

Preparing to give a lecture about an 1842 Naval court-martial, Mac finds herself daydreaming about what actually happened.