Callen and Sam are trapped in an armed submarine that terrorists have aimed to hit an aircraft carrier in San Diego. Meanwhile, Hetty defies orders and forgoes her trip to Washington, as the team tries to locate and save Callen and Sam and prevent the terrorist attack.
The NCIS: LA team discovers that one of their own is compromised when they investigate the murder of a Navy contractor involved in illegal transactions of confidential data. Meanwhile, Hetty is under investigation in Washington, D.C., when the Department of Justice arrives in L.A. to investigate the team.
The NCIS: LA team takes action to protect one of their own while being interrogated by the Department of Justice. Meanwhile, Nell goes undercover as Hetty, and Director Leon Vance gives Hetty disturbing news while she is in Washington.
The team goes beyond boundaries to make sure Hetty is safe but what they don't know is that Hetty have her own plan as always. Meanwhile Nell is having a hard time after having killed for the first time and is visited by a know face who might be able to help her.