Having woken up in Hong Kong, Sydney had no memory of the last two years! She returned to Los Angeles to try to piece together her life and discover the fates of her friends and family. Vaughn had married thinking that Sydney was long dead, Marshall was having a baby with CIA tech expert Carrie Bowman, and Dixon was now the new division head of the L.A. office branch of the CIA.
Sydney also learned the shocking fates of Jack and Sloane: the former was in CIA custody for communicating with Irina, who was still hiding, while the latter was living in Switzerland under house arrest in exchange for co-operation with the CIA. Sydney was granted temporary CIA clearance on a case that may help her regain her memory and she met a new enemy group called The Covenant.