| 92 (5-01) | "Nameless, Faceless (3)" | September 23, 2009 | 501 |
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As Rossi, Morgan and JJ profile a killer who is targeting an emergency room doctor, Prentiss realizes that Hotch is missing. Special Guest Star: C. Thomas Howell, Paul Butcher |
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| 93 (5-02) | "Haunted" | September 30, 2009 | 502 |
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The BAU is called to Louisville to help local authorities determine what caused a disturbed man to have a psychotic break at a pharmacy and murder several customers before fleeing the scene. The team must catch him before he kills anyone else. Special Guest Star: Sean Patrick Flanery |
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| 94 (5-03) | "Reckoner" | October 7, 2009 | 503 |
| SSA David Rossi's personal and professional life is brought to the forefront when the BAU is called to investigate a case in Commack, Long Island, Agent Rossi's hometown. | |||
| 95 (5-04) | "Hopeless" | October 14, 2009 | 504 |
| The BAU investigates a group of suspects with a pack mentality who are randomly selecting their victims in the nation's capital and murdering them for the thrill of it. | |||
| 96 (5-05) | "Cradle To Grave" | October 21, 2009 | 505 |
| The BAU travels to Albuquerque to investigate the case of a serial killer who impregnates young women and murders them after they have given birth. | |||
| 97 (5-06) | "The Eyes Have It" | November 4, 2009 | 506 |
| The BAU is called to Oklahoma City to help local authorities track a serial killer who removes the eyes of his murder victims and keeps the eyes as souvenirs. | |||
| 98 (5-07) | "The Performer" | November 11, 2009 | 507 |
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The BAU is called to Los Angeles to investigate a series of killings that lead to a Goth rock star who appears to have become lost in the creepy alter-ego he portrays when he is on stage. Special Guest Star: Gavin Rossdale |
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| 99 (5-08) | "Outfoxed" | November 18, 2009 | 508 |
| While investigating a series of murders of entire families in Hampton, Virginia, the BAU is forced to visit Red Onion Supermax Prison to seek advice from one of the most atrocious killers from the team's past, nicknamed "The Fox," who delivers a portentous message to Agent Hotchner. | |||
| 100 (5-09) | "100" | November 25, 2009 | 509 |
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When The Reaper returns to Washington for a final showdown, the team works frantically to catch him before he reaches SSA Hotchner's family. Special Guest Star: C. Thomas Howell |
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| 101 (5-10) | "The Slave of Duty" | December 9, 2009 | 510 |
| While Agent Hotchner takes a leave of absence to contemplate his future with the BAU, the team is called to investigate a home invasion case in Nashville without him. | |||
| 102 (5-11) | "Retaliation" | December 16, 2009 | 511 |
| After an ex-convict makes a daring escape from the BAU's custody and embarks on a killing spree in Lockport, New York, the team must profile the criminal's past in order to catch him again. | |||
| 103 (5-12) | "The Uncanny Valley" | January 13, 2010 | 512 |
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As SSA Hotchner struggles with his return to work, the team is called to Atlantic City to profile a suspect with an unusual personal obsession: abducting certain types of women and turning them into real-life dolls. Special Guest Star: Jonathan Frakes |
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| 104 (5-13) | "Risky Business" | January 20, 2010 | 513 |
| The BAU is called to assist local authorities in rural Wyoming when teens are found dead from what appears to be suicide and linked to the internet. | |||
| 105 (5-14) | "Parasite" | February 3, 2010 | 514 |
| The team profiles a con artist whose descent into mental illness is prompting him to kill people involved in his scams. | |||
| 106 (5-15) | "Public Enemy" | February 10, 2010 | 515 |
| The team profiles a serial killer who murders his victims in public places, hoping to cause widespread fear. | |||
| 107 (5-16) | "Mosley Lane" | March 3, 2010 | 516 |
| The BAU profiles a child abductor who may have been harboring children for more than eight years. | |||
| 108 (5-17) | "A Solitary Man" | 2010 | 517 |
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Season 5