Eventually, Killian returns to the Enchanted Forest and allies with Cora Mills just before Cora's daughter Regina unleashes the first Dark Curse. Killian works for Peter Pan, and after a deal gone wrong with the deity Poseidon, he steals Ursula's voice. Replacing his hand with a hook, Killian and his crew sail to Neverland, vowing revenge against Rumplestiltskin. He then cuts off Killian's hand before vanishing. Furious, Rumplestiltskin rips out Milah's heart and crushes it, killing her. However, when Rumplestiltskin angrily starts questioning her, asking her how she could abandon her own son, Milah bitterly replies that she wanted to escape her miserable life, and that she never loved Rumplestiltskin. Milah offers Rumplestiltskin a magic bean in exchange for Killian and Milah's lives. Rumplestiltskin finds out that Killian and Milah are in love, and Milah went with him willingly, hoping to escape being the wife of a coward and explore. Rumplestiltskin plans on ripping out Killian's heart, until he is confronted by Milah, who has become a pirate. He challenges Jones to a sword-fight, and uses his dark magic to win. Years later, after Rumplestiltskin becomes the Dark One, he sees Killian and his crew at a tavern and confronts him once again. After Jones apparently takes a woman named Milah, her husband Rumplestiltskin confronts him but is too cowardly to do anything about it. Once a respectable member of the King's Navy, Killian Jones eventually turned to piracy after finding out that his king was corrupt, and became pirate captain of the Jolly Roger.

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