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When a college student is killed in her dorm room Moretti and Pierce are asked to help solve the crime. The investigation proves uncomfortable for Pierce and forces him to confront some truths about his past. Moretti begins to reassess her relationship with Hathaway.
When a former student tells Pierce about a potential conspiracy regarding a U.S. senator's death, things soon spiral out of control. Pierce may not be able to trust those around him. (Part 1 of 2)
New evidence found online has Moretti seeing Pierce's conspiracy theory in a new light. Pierce's new doctor presses him to face the truth about Natalie. (Part 2 of 2)
A little introspection is called for when Pierce helps on a case involving a schizophrenic. Moretti does her best to impress her boss.
Donnie doubts Pierce's theory about inattentional blindness as it relates to a series of bizarre public murders. But Pierce has a way to prove his point so they move quickly to piece together the clues and outsmart the clever killer before he can murder again.
Pierce is accused of stalking Caroline which brings his mental stability into question. Moretti teams up with a Canadian inspector to find the real stalker.
When Pierce is asked to verify the mental competency for a man being retried for murder, his findings bring up more questions. Meanwhile, Moretti's soon-to-be-ex-husband Donnie Ryan is the Assistant U.S. Attorney prosecuting the case.
Moretti questions why Pierce is working a case without her after he accepts an invitation from a renowned environmental activist. The case involves a chain of abnormal neurological reactions, but Pierce's examination of the group of young girls involved uncovers a dark secret.
Pierce and Donny try to clear Moretti's name when she faces criminal charges from her work on a dangerous case. Conflicting evidence has Kate doubting her innocence.
When Pierce teams with Donnie to investigate a new brain device that aims to control tremors their alliance is tested when the case turns to murder. Lewicki learns a valuable lesson about dating.
Pierce is sure that a psychiatric hospital is full of secrets after he investigates a stabbing there.
Pierce attempts to break a code that someone left in a newspaper.
Pierce and Moretti deal with a woman who says aliens have abducted her husband. Meanwhile, Pierce's relationship with his real-life girlfriend, Caroline, could be in trouble if he can't rid imaginary Natalie from him mind.
When a 1986 serial killer resurfaces, Pierce and Moretti look for clues. Moretti gets some advice from her father.
Donnie's efforts to help a war hero end up with major implications. A fling from Pierce's past shows up.
Pierce and Morretti dive into the world of Caleidoscope to solve the murder of a man who spent most of his time playing the virtual reality online game. But Pierce has trouble telling the difference between reality and fantasy after he creates an avatar of himself.
The prime suspect in the murder of a mail-order bride suffers from a malady that leaves him unable to recognize faces. A new professor attracts Moretti's attention.
A deathbed confession about a 1992 hit-and-run murder sends Moretti to Pierce for his help in determining the dying man's credibility. But when the man's physician says his patient's tumor has mysteriously disappeared, the case gets complicated. Pierce and Moretti must dig into the past to uncover the truth.
A sniper targets the Federal Building lobby, putting Moretti and Donnie in the crosshairs. Before long, Pierce concludes that the shooter fears low-frequency radio waves. Meanwhile, a beguiling woman prompts Donnie to run for office.
Lewicki's brother, Kenny, makes a surprise visit. When he's later named as the suspect in a murder, Pierce's loyalties are torn between friendship and justice. An enticing offer makes Lewicki question Pierce's loyalty to him.
Pierce helps out when an autistic teen is under investigation for murder with help from his hallucination Hall of Famer Mordecai "Three Finger" Brown. Dean Haley sets out to convince a neuroscience prodigy to attend CLMU.
When Pierce and Moretti investigate the death of a young man they must determine if his murder is linked to his past drug use or his new life in a cult where a young man believes God speaks to him. Pierce receives an award from the university for his research.
A close friend of Pierce's is murdered and he receives word that the CIA might be murdering U.S. citizens. Moretti decides to tackle her trust issues.
Neuroscience professor Dr. Daniel Pierce is recruited by a former student, FBI Agent Kate Moretti, to help out on a case involving the death of a pharmaceutical executive. But Daniel's schizophrenic hallucinations could potentially derail or solve the investigation.
Pierce helps Donnie when Donnie finds himself in a compromising situation and evidence stacks up against him. Meanwhile, Pierce's father assaults someone at an assisted-living facility.
Pierce helps investigate the death of a therapist while Moretti spends time with Hathaway. Dean Haley is fund raising for a new building.
Pierce and Moretti stumble on an international scandal when investigating the murders of a Bangladeshi diplomat and a Chicago reporter. Kate struggles as she prepares for her wedding so she asks Pierce for help.
Daniel's father and his friend Dean Haley are faced with the decision on whether to allow Pierce to undergo a high-risk surgery for his traumatic injury. Daniel works on solving a different kind of murder case.
A missing FBI agent is found dead in an investigation that forces Pierce to face a past unsolved case, and Pierce's therapist grows concerned that the investigation may exacerbate Pierce's condition.
Season 3 opens with Pierce's new life in Paris upended when he's enlisted to probe a risky international case. Elsewhere, Max and Dean Paul Haley scheme to bring Pierce back to Chicago.
Pierce attempts to find the killer of a student while defending the victim's boyfriend, who is believed to be mentally ill and guilty of the crime. Pierce has to face up to his feelings about Kate as her wedding day nears.
A prosecutor mysteriously drops dead in the courtroom, trigging an investigation by Pierce and Moretti. Meanwhile, Moretti and Donnie make important life decisions.
An infant is reported stolen. Moretti tracks the kidnapper, only to make a bizarre discovery. Elsewhere, Pierce and Moretti probe a related murder, and Donnie sets out to buy a house in the suburbs.
In the series finale, Moretti goes missing on the day of her wedding, and Pierce soon discovers that she's been abducted by a dangerous person from his past.
A notable neuroscientist is found dead, and Pierce and Moretti must determine how the killer infiltrated the victim's impenetrable study to commit the deadly deed. Meanwhile, Pierce's father moves in with Pierce and Lewicki.
Pierce witnesses the death of a gallery owner, but he comes to believe it was actually a murder. Pierce and Moretti try to hunt down the killer, only to end up in the middle of a daring art heist. Meanwhile, Pierce analyzes his relationship with Natalie.
Moretti goes undercover to investigate the brutal murders of meat-company owners. Meanwhile, Pierce contemplates making a personal confession to Moretti.
A boy with a developmental disorder is taken hostage during a bank robbery. Elsewhere, Pierce's estranged father visits.
Pierce examines a woman who has confessed to a murder and claims to be possessed by the devil. Meanwhile, obstacles mar Donnie and Moretti's wedding plans.