While dealing with anxiety, depression, and moments of blackouts, Clay Jensen (Dylan Minnette) has many sessions with his therapist (Gary Sinise) so he can process his guilt and trauma.
Although he didn't believe he'd get into college, Clay is accepted into Brown University — after his then-girlfriend Amorowat Anysia "Ani" Achola (Grace Saif) secretly revises and submits his essay. The two break up but end the season as friends.
But before heading to college, Clay experiences a number of rocky moments.
Liberty High hosts an active-shooter drill without announcing it beforehand, which leads many students to fear for their lives. After angrily telling the principal that this drill was dangerous and traumatic, Clay steals a gun from a police officer and begins waving it around. He gets tackled by an officer and is admitted to the psych ward of a hospital for evaluation, but he ends up escaping.
Later in the season, we learn Clay defaced the school's property with messages about Monty not being guilty, but he's forgotten about it due to his numerous blackouts.
Clay and his friends also help to incite a riot at Liberty High, and Clay sets the principal's car on fire but forgets about it due to another blackout.
Toward the end of the season, Clay pretends to have a gun and walks into police headquarters, trying to commit suicide by cop. He is talked down by officers and is let off of the hook.
On the series finale, Clay gives a speech at graduation and he meets a girl named Heidi (Veronica St. Clair) who will also be attending Brown next semester. The two agree to get coffee and look at course catalogs together.
Additionally, Hannah's mother sends Clay the box of Hannah's tapes for him to keep. He and his friends decide to bury the box where Clay first listened to his tape.
Clay ends the season by heading off on a pre-college road trip with Tony (Christian Navarro).