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Shaun Murphy, a young surgeon with autism and Savant syndrome, is recruited into the surgical unit of a prestigious hospital.

It follows David Jung a former US intelligence operative. When the consequences of an decision from his past come back to haunt him, he finds himself pursued by Rebecca, a sociopathic agent assigned to kill him.

A conspiracy theorist questions Dr. Marcus Andrews; Dr. Claire Browne treats a woman whose inability to feel pain is threatening both her marriage and her life; Dr. Shaun Murphy and Dr. Aaron Glassman each face crises in their romantic relationships.

Dr. Marcus Andrews vows to help a good Samaritan who was injured while stopping a sexual assault; Dr. Audrey Lim faces a difficult decision when a young patient's parents suspect that Dr. Neil Melendez made a mistake.

Dr. Claire Browne faces complications at home and work as she prepares to lead her first surgery; the staff must treat a fisherman's injuries without damaging his prize catch.

While performing his first solo surgery, Dr. Shaun Murphy alienates a nurse, which puts his residency in jeopardy. Also, Dr. Neil Melendez disagrees with Dr. Audrey Lim on a risky surgery, and Dr. Claire Brown spirals into self-destructive behaviors, causing negative ramifications in the workplace.

Dr. Andrews questions whether Shaun is really ready for his first surgery; Dr. Brown and Dr. Reznick have a patient whose diagnosis has them doubting his story.

Shaun visits his father on his deathbed and the reunion's results are unexpected. Claire addresses her grief. An NFL player needs treatment.

Carly's attempts at increasing her intimacy with Shaun are becoming more of a frustration than either of them expected. Meanwhile, Lim and Melendez struggle in their relationship as they work to separate their work from their personal life.

Dr. Shaun Murphy's unique ability to relate to a patient isolated by an immune deficiency yields an unexpected result; a 12-year-old patient is about to become blind; tension builds between Dr. Neil Melendez and Dr. Audrey Lim.

Shaun is ready for the next step in his relationship with Carly. A young woman must decide on a life saving procedure that might destroy her marriage.

Shaun opens up with Aaron about his feelings towards Lea.