Following a mission in Iceland, Third Echelon Agent Sam Fisher, who has been doing top secret missions for years, learns that his daughter, Sarah, was killed in a car accident. Her death leaves Sam distressed, and his boss, Irving Lambert, in an effort to straighten him out, assigns Sam on a type of mission he's never done before: Sam Fisher must go undercover in a terrorist organization known as the JBA (John Brown's Army) which seeks to overthrow the American government by any means necessary. During his mission, Sam must ensure that until he stops the JBA, he must not blow his cover.