After the Battle of New York, the world has changed. It now knows not only about the Avengers, but also the powerful menaces that require those superheroes and more to face them. In response, Phil Coulson of the Strategic Homeland Intervention, Enforcement and Logistics Division assembles an elite covert team to find and deal with these threats wherever they are found. With a world rapidly becoming more bizarre and dangerous than ever before as the supervillains arise, these agents of S.H.I.E.L.D. are ready to take them on.
Season 3 opens with Kara dealing with the loss on Mon-El by focusing her energy on being Supergirl and concentrating on a mysterious new threat; Alex confessing a secret to Maggie; a citizen of National City having a mysterious connection to Kara; Lena making a bold move.
Carrie Mathison, a CIA operations officer, is on probation after carrying out an unauthorized operation in Iraq. As a result, she has been reassigned to the Counter terrorism center. Whilst in Iraq, she was warned that an American prisoner had been turned by Al-Qaeda. When Nicholas Brody, a U.S. Marine Sergeant, is rescued after being held hostage since 2003, she suspects that he is the one. While Brody is received home as a war hero, Carrie goes to any lengths necessary to catch him out.
When the Legends realize that they broke the timeline, Rip Hunter arrives with his new organization - the Time Bureau - to relieve them of duty. The Legends are thrilled to get a chance to put the team back together but a new threat arises when Rory spots Julius Caesar in Aruba. Sara, Nate and Ray devise a plan to steal the Waverider back from the Time Burea