An attack is made on the President as hot-button, alien vs. human rights issues heat up in National City. Supergirl and the DEO are assigned to protect the President and bring in the responsible party. Alex teams up with Detective Maggie Sawyer to investigate the case while Kara searches for a recently escaped Mon-El, who she fears may be the alien behind the assault.

Colonel Haley is upset after Supergirl responds to a distress call from a Navy ship that turned out to be a deadly alien attack. Colonel Haley reclaims the site as DEO territory and demands that Supergirl step aside. After Supergirl refuses to be told what to do, Haley refocuses her energy on finding out Supergirl's true identity and begins to interrogate all DEO agents, including Alex. Meanwhile, Brainiac-5 tries to persuade Nia to embrace her superpowers but she misinterprets his motives.