Hondo and the SWAT team spread out across Los Angeles in pursuit of four escaped convicts, including a violent criminal Jessica helped bring to justice, before department rival Mumford and his team beat them to the collars. Also, Hondo’s new role as team leader is called into question when Street displays a flagrant disregard for SWAT protocol.

Hondo puts aside his misgivings about Jim Street's recklessness and allows the newbie to go undercover as a broker in a luxury car theft ring to bust a ruthless trafficker. Also, Hondo visits Raymont Harris, the teenager recently shot by a former member of the SWAT team, who is dealing with PTSD. [also shown as S1:E5]

Hondo and the SWAT team are forced to work over their Christmas vacation when a drug cartel is out for blood after their cache of gold bars is stolen. Also, Jessica draws the attention of Michael Plank, president of the Police Commission, when she approaches him with her ideas on how to improve the SWAT division.

The SWAT team is enlisted by Hondo’s new romantic interest to protect the jurors of a high-profile bribery trial, after some of them are targeted by organized crime in a series of fire-bombings.

The SWAT team tries to determine the next diamond dealer to be robbed by a group of highly organized thieves executing heists across downtown Los Angeles. When Hondo is emotionally affected by a suspect’s death during the case, he seeks comfort from his mother. Street worries that his SWAT training academy instructor has a personal vendetta against him. Chris contemplates an unorthodox relationship offer from the new woman she’s dating.

When the SWAT team is called in to work on their day off to end a hostage situation, they discover one of the captives is a wanted felon. When Hondo saves his sister after she's been roofied at a nightclub, he uses his day off to hunt a serial rapist.

Jessica and Chris go undercover in Mexico, alone and without back-up, to save a Mexican federal agent kidnapped by a drug-dealing gang that Jessica helped bring to justice years before. Also, Hondo’s mother, Charice, worries he’s under emotional strain when he engages in a series of small home renovation projects in her home.

The SWAT team pursues a group of unknown assailants responsible for a patrol officer’s death before tension in the city between the police and the community explodes. Also, as Chris reels from the revelation that she knew the patrol officer who was killed, Deacon and his wife, Annie, prepare to welcome their newest child.

Hondo has a tense reunion with a fellow Marine, Ruiz, when the team hunts an escaped convict who was broken out of prison by criminals using stolen military weapons; Chris prepares for a difficult goodbye when her former K-9 partner becomes ill.

The SWAT team finds itself under internal investigation after a civilian is killed as they attempted to bring in the city’s most wanted criminal. As the mission details are revealed, the force’s internal affairs team calls Hondo’s leadership into question.