"Covert Affairs" centers on a young CIA operative, Annie Walker, mysteriously summoned to headquarters for duty as a field operative. While Annie believes she's been promoted for her exceptional linguistic skills, there may be something or someone from her past that her CIA bosses are really after. Auggie Anderson is a CIA military intelligence agent who was blinded while on assignment and is Annie's guide in this world of bureaucracy, excitement and intrigue.
When a fellow spy is taken hostage, Annie travels to Amsterdam to eliminate Khalid once and for all.
With Auggie in Iraq and Joan out of the office, Annie turns to Eyal to help her track down Khalid Ansari.