After preparing a museum in D.C. for presidential visit, 2 Secret Service agents are transferred to an isolated warehouse 13 in South Dakota, where Artie sends them to Iowa to collect a supernatural artifact from a law school student.

Pete and Myka are sent to Chicago to investigate a series of odd bank robberies. During their investigation, they have a run-in with Bonnie Belski, a persistent FBI agent looking for a logical explanation for the happenings. It seems the bank robbers are using a device that creates a sound resonance so severe, it sort of hypnotizes all who hear it and leaves them in a state of euphoria for minutes after. It's up to Myka and Pete to figure out where the robbers will strike next and retrieve whatever bizarre object they are employing. Meanwhile, Artie examines a possible security breach back at the warehouse.

Pete and Myka are sent to investigate a small town where the inhabitants' minds are being altered making them act as they please. Meanwhile, Artie is confused by the energy flows going on in the warehouse and he seeks help from Leena who may know more about what is going on.

Artie is kidnapped by a woman who blames him for the death of her brother.

The Warehouse team pursues an artifact collector who is trying to gather together sculptures of the four elements thinking they will enable him to find the secret to obtaining god-like powers.

Tony meets Jeanne's father; Tony excuses himself to move his Mustang, which explodes while the gang watch; Ducky says that the victim is not Tony. The Frog meets Jen, but she lets him leave; Gibbs and others pursue him but arrive too late.

The NCIS gang investigate the death of a sailor in a hit-and-run wreck, which turns into a shoot-and-scoot; Ducky finds nearby the body of a young woman who gave birth and died before the wreck. The team figure out the lies and the case.

A Captain is killed at home with a spear. His wife is having an affair with his Major, whose prints are found at the scene. Jethro's ex-wife, Stephanie, is seeing the Major too. Lt. Col. Mann, Jethro's girlfriend, leads the investigation.

While demonstrating an autopsy, Ducky announces murder; Gibbs and company investigate. The victim worked for the FBI, which tried to catch a person who erased old identities and created new ones. The NCIS and the FBI catch the bad guys.

A Navy lieutenant threatens to jump from an 11th-floor ledge in Washington; the Metro PD calls the NCIS; Gibbs and company respond and investigate; Gibbs talks the man out of jumping, then someone shoots him. With help the gang find a mole.

A sailor dies on ship, but by the time the team arrive to investigate he is the only person left onboard.

A special friend of Gibbs's daughter asks for help with a Marine sergeant, who has begun stalking her. Gibbs gives him the word, but soon someone abducts the friend and tortures and kills the Marine. Gibbs and Tony solve it and work it out.

While a Navy rear admiral rides in a taxi, two motorcyclists, using silenced pistols, execute both men; Gibbs and company investigate. Ducky says that the target was the driver, who was a political refugee from Burundi. The gang solve it.

While McGee gives his den of Youth Rangers a tour of the NCIS headquarters, one of his boys pops up in a missing-persons database; Gibbs and company investigate. The team find lies, deception, a fugitive, a new murder, and the real killer.

A to-be-decorated Marine, Corporal Damon Werth, becomes violent during his PTSD treatment. He has fistfights with NCIS agents. It is found that he is on steroids, and a Navy contractor is suspected of experiments on him.

Pete and Myka hunt for a lethal artifact but it finds Pete first. As Pete prepares to sacrifice himself as did the first Warehouse agent who recovered it, Myka searches for a way to save him, if she can find him.

The theft of the perfect Samurai sword attracts Artie's attention because he suspects his former partner and current nemesis; McPherson.

Pete's goofing around with Lewis Carroll's mirror creates a mishap in the warehouse with bad consequences for Myka, but there's no time to learn of it as Artie has to send his agents out right away to discover how two small-time crooks are suddenly able to rake in millions at the casinos without raising any eyebrows.

A prison, a new warden, and a charismatic preacher inmate who may have a artifact seems related to a string prisoner suicides accompanied by hallucinations. Pete and Myka search for the artifact as an approaching tropical storm accentuates its influence but get caught up in the mayhem.

While Artie undergoes a Warehouse style performance review things go from a little haywire to seriously bad at the Warehouse.

The Warehouse team narrowly misses nabbing McPherson then Myka's father falls under the influence of an artifact that resists the purple goo.

Mrs. Frederics explains the reason for MacPherson's break with the Warehouse program. Despite some extreme precautions he managed to get his hands on some artifacts that he plans to auction. But to Artie and the team it all sounds like a smoke screen for a more nefarious plan.

MacPherson escapes with what he took from the warehouse's bronze sector, and a car crash puts Mrs. Frederic in the hospital. Meanwhile Pete and Myka head London to gather clues about MacPherson's plan.

A Marine lance corporal, of Arabic lineage and the Islamic faith, dies two blocks from a mosque in Washington, DC; Gibbs and company investigate. Ducky uses an alternate method; Abby finds a deadly neurotoxin. A tip helps; justice prevails.

Someone has stolen new top-secret radar gear; the NCIS gets a tip about its location. During a stakeout of the site, McGee watches while a man dies; the radar disappears again. The gang and the Metro PD figure it out and catch the bad guy.