The governor calls on Team Scorpion when his daughter is mysteriously "bio-hacked" with a deadly virus and only has 24 hours to live. The case takes on a deeper significance for Walter after he receives a letter regarding his sister.

When a military plane is shot down in Bosnia, Team Scorpion must help recover its stealth technology before it falls into enemy hands. Meanwhile, Walter's sister takes a break from her MS treatment and spends time at the garage with Sylvester

When Sylvester accidentally triggers an explosive device during an investigation, Team Scorpion must focus on finding who's responsible even while their friend's life hangs in the balance.

On Christmas Eve, Team Scorpion races to find a way to save a young boy's life after he is trapped in a beachside cave and the rising tide threatens to drown him.

A tech billionaire hires Team Scorpion to rescue his kidnapped daughter. Meanwhile, some feelings get hurt when Walter gives an interview and fails to acknowledge the other members of the team.

Sylvester goes undercover in a federal prison in order to save the lives of three judges, but the team must help him escape when his life is threatened.

Team Scorpion goes undercover on the “Super Fun Guy” movie set in Kazakhstan in order to disable a soviet era nuclear missile being sold by terrorists.

Team Scorpion helps the CIA locate a top-secret aircraft in Area 51 in order to raise money for Walter's research to save his sister's life.

Team Scorpion is blackmailed to break into the United Nations to assist in the assassination of a menacing arms dealer. Also, Sylvester makes a bold move to protect Megan's wishes.

When Team Scorpion and Walter's parents visit Megan in the hospital as her health deteriorates, they are quarantined after a deadly fungus outbreak threatens to infect everyone.