After being resurrected, Ichabod Crane finds himself in modern-day Sleepy Hollow, where evil has awoken with him. Ichabod forms an unlikely bond with detective Abbie Mills, a young cop who has her own childhood supernatural experiences. Together, the two embark on a mission to stop evil and uncover mysteries dating back to the founding of their country.
Andy Brooks is tasked to resurrect Serilda of Abaddon, the high priestess of a dark coven, who had been captured and sentenced to death. Burned at the stake, Serilda has until the turn of the blood moon to obtain the ashes of the descendants of the men who killed her.
A rare case of suicides are going around Sleepy Hollow. One of the victims shoots himself during a police siege, but not before telling Abbie that she will be the next victim of the Sandman. With the help of a Mohawk shaman, Abbie and Ichabod undergo a ritual to enter the dream world of the Sandman, where Abbie must atone for her past actions.
When an unidentified boy is discovered in Sleepy Hollow, Ichabod and Abbie are called to the scene. After speaking with the child, they realize that a deadly plague is afoot and the duo go on a hunt to discover his home and origins, and are shocked by what they find.
When Ichabod goes missing, his wife, Katrina, contacts Abbie in a vision, forewarning of the evil to return to Sleepy Hollow by nightfall. Abbie seeks help from the mysterious Henry Parish, who holds vital clues on how he can vanquish Crane's blood tie to the Headless Horseman. Meanwhile, an encounter from Crane's past weighs heavily on him.
Ichabod, Abbie, Captain Irving, and Jenny join forces and face the Headless Horseman. While staring down his nemesis, Ichabod is shocked by game changing information about the Horseman's true motive and identity.
Captain Irving's daughter is targeted by evil forces, so he pleads for help from Crane and Mills, and looks to Washington's bible for answers. However, another frightening chapter of Jenny's past is revealed.
Ichabod and Abbie learn of a map of Purgatory that is buried with Washington's body and enlist the assistance of Henry. Meanwhile, after failing to get Abbie to hand over the map, Andy offers himself to Moloch and is transformed into a demon and attacks Ichabod and Abbie while in Washington's tomb. After understanding how dangerous the map is, Ichabod is prompted to dispose of it.
Ichabod and Abbie reach Purgatory to save Katrina in time, but it turns out that Katrina can't leave without a soul taking her place. Meanwhile, Jenny discovers a shocking secret, and she tries to reach the Witnesses in time.
To defeat the Horseman, Ichabod and Abbie seek out a patchwork man that Franklin and the Sisterhood built to oppose Moloch's servants. Meanwhile, the new sheriff arrests Jenny and Frank explains that demons killed his supposed murder victims.
Ichabod and Abbie discover that Henry is trying to spread a curse of violence, unleashing the darkness in individuals so that they kill. Meanwhile, Jenny discovers who was responsible for her mother's imprisonment at Terrytown, and Frank learns the truth about his lawyer.
Corbin's son Joe returns from overseas after receiving an honorable discharge after his platoon is wiped out in a bizarre attack. Ichabod and Abbie soon realize that something is wrong with him. Meanwhile, Henry tells Irving that there is a way for him to free his soul, but it has a cost that Irving may not want to pay.
Henry brings in a doctor to monitor Katrina's condition after her sudden illness. She manages to escape and Ichabod finds her, and they realize that Moloch has a new plan to manifest on Earth. To stop him, Ichabod reaches out to Henry to use his powers to save his mother.
Ichabod and Abbie discover the existence of the Sword of Methuselah, the only weapon capable of killing Moloch. They race to find it, only to discover that Henry has learned of the weapon's existence and sent the Horseman of Death to get it first.
Nick's godmother, the woman who raised him after his parents died, asks for his helping stealing a mystic artifact. He reluctantly agrees, putting him at odds with Abbie, Ichabod, and Jenny. Meanwhile, Irving is cleared of the charges against him but Cynthia still has concerns.
Solomon Kent, a warlock who set off the Salem Witch Trials to protect himself, seeks out a Grimoire that will give him the power to undo the mistake in his past that turned him into a warlock. Meanwhile, Irving approaches Abbie, while Henry contemplates his past and decides on his future.
Nine months had passed and a mysterious women named Pandora encounters the Headless Horseman and steals him away in her box. Ichabod tells Abbie that the second tribulation is about to begin and after catching up they are drawn into a murder investigation involving a demon that paralyzes its victims with fear before killing them. During the course of the investigating Ichabod recounts his memories of a companion, Betsy Ross to Abbis and Jenny.
Whispers in the dark
8 October 2015
A strange death in a shopping mall results in the discovery that an ancient demon has been released that hunts those who are keeping key secrets from others. During their confrontation with it, Abbie reveals that she has been monitoring her long-absent father- although she is undecided about what she will do with this discovery- and Crane reveals that General Howe offered him a chance to return to Britain if he exposed Washington's spies, Crane being briefly tempted by the offer. Learning that the demon was once a human being that is vulnerable when identified by its original name Marcus Collins, Crane is able to defeat it.
Blood and Fear
15 October 2015
Pandora's next assault involves giving a man a knife that causes him to act on his darker impulses and murder those he hates. Witnessing one of the bodies, Ichabod recalls a similar case when he was a boy at Eton College in 1763, and realizes that the killer they are tracking was also Jack the Ripper. Research at the archive reveals that the Ripper's knife is the actual Ripper, as it drives its 'wielder' to kill. Researching the past killings, Ichabod and Abby realize that the killings are always stopped amid a wave of disease, realizing that the knife absorbs the blood of its victims and its wielder died when the knife killed someone with the disease.
The Sisters Mills
22 October 2015
Ichabod and Abbie investigate a case involving two sisters; the youngest had fallen into a mysterious coma, and the oldest tells them that she witnessed her sister being attacked by a monster.
Dead Men tell No Tales
29 October 2015
Following the events of the Bones episode "The Resurrection in the Remains:" When Pandora reanimates William Howe as an undead being while his remains are being sent to Sleepy Hollow from Washington and instructs Howe to reanimate his old soldiers as an undead army, Crane and Abbie learn that he can only be defeated by a secret hidden in his original tomb. Using fragments of Howe's skeleton, they call in a favor from Special Agent Seeley Booth and Doctor Temperance "Bones" Brennan (Bones) to analyze the fragments, discovering the tomb underneath the Capitol Building, originally designed for George Washington's use
This Red Lady from Caribee
5 November 2015
Pandora's latest summoning involves a creature that stings its targets and causes them to succumb to paranoia before the infection kills them, one of which attacks Agent Reynolds. Finding records of an encounter between Betsy Ross and the creature, Crane and Abbie are able to track the beast's lair and burn it down, but are taken by surprise when they discover Pandora's tree, which she enters as the sixth blossom blooms.
The Art of War
12 November 2015
Jenny realizes that she has actually absorbed the power of the Shard of Anubis, prompting Atticus to summon a trio of creatures to search for her and drain the power. While the creatures originate from Norse mythology, Crane realizes that they were summoned by invoking Pandora's name, which results in them being immune to their traditional weakness of mistletoe. Although Crane is inspired to use Jenny's blood to trick the creatures into attacking each other, Jenny falls under the Shard's influence, returning to Pandora's tree just as Pandora returns, accompanied by another man in a long robe.
Novus Ordo Seclorum
19 November 2015
Learning that Pandora's summoned ally is an ancient Sumerian god known only as 'the Hidden One', Crane recalls a tale in the books in the armory about the death of Paul Revere's nephew under similar circumstances. Realizing that the Shard of Anubis contained and hid the power that is now within Jenny, Crane is able to reforge the shard based on his memory of witnessing its original creation. When Nevins offers to talk to Abbie about where she might find Jenny, he is killed by Pandora, who offers Abbie and Crane a place in the new world that she and her 'husband' will create once they have 'cleansed' the current one. While Crane uses Nevins' book to distract Pandora by attempting to summon something from her Box, Abbie drains the Shard's power into the new shard, but, believing that it is the only way to save the world and her sister, she then takes the new Shard into the Hell portal under Pandora's tree. The resulting energy release apparently destroys Pandora's Box, leaving Abbie's fate unclear.
5 February 2016
After the events of the previous episode, this episode shows Ichabod and the FBI searching for Abbie. Ichabod and Agent Sophie end up dealing with a vengeance-dealing demon whilst Jenny and Joe go back to an old friend searching for a map.