"Don't waste your time. It's too late to save your friend, Celebi. Because the sweet, little Pokémon you used to know doesn't exist anymore. Here, see for yourself! Celebi, get rid of them all!...With Celebi, I can rule Team Rocket, and the whole world if I want to!"Pokémon has several especially heinous villains.
—The Iron-Masked Marauder, Pokémon 4Ever
- Pokémon Mystery Dungeon: Explorers: Darkrai is the true Big Bad, and is far more evil than Classical Darkrai. He was responsible for the collapsing of Temporal Tower that lead to the Bad Future, tortures an innocent child with violent nightmares to lure out the the Player Character and his partner, and makes several attempts to assassinate them so he can try his plans again. One of his murder attempts involves trying to get the heroes to willingly commit suicide by tricking them into thinking their existence is threatening the space-time continuum due to Time Travel shenanigans, which is easily one of the darkest moments in any Pokémon game. He has no regrets for his crimes and wishes nothing more than the complete and utter destruction of the world, just so he can rule the tattered remains.
- Pokémon Ranger: Guardian Signs: Purple Eyes. Before we even learn he exists, he's beaten Rand within an inch of his life and kidnapped both his wife and daughter. Later, he beats the daughter up, too. He eventually mugs the elderly Societea members, hijacks the villain's plans, makes himself immortal, pumps up Mewtwo's power higher than it should ever be, and then commands Mewtwo to finish off Dr. Edward. And when Rand takes the shot for Edward, Purple Eyes is simply amused and continues to attack anyway, even taunting Rand's daughter about it. After you beat him, he points out that the Sky Fortress is now plummeting and will wipe out all of Oblivia, before laughing. Rand's wife said that the ruins she and her daughter were captured and tortured in is the only place that gives her recurring nightmares. In the last Extra Mission, in which an enraged Arceus is passing judgment on the human race, he arrives in person. His imprisonment and constant questioning has not redeemed him, but instead turned him into a Misanthrope Supreme who no longer wishes to rule over all humans, but instead Kill All Humans. He begins preaching to Arceus that it should go through with the destruction, but to allow himself to act as its Dragon due to their similar beliefs about humans, which only enrages Arceus more.
- Pokémon 4Ever: The Iron-Masked Marauder is the film's Big Bad and one of Team Rocket's elite agents. The Marauder designed the Dark Balls, which devolve any Pokemon caught in them into mindless evil against their will, and he uses them in his quest to capture Celebi. He demonstrates this by corrupting a Tyranitar into destroying a hunter's camp to get him to spill information about Celebi. Coming into conflict with Ash and Sammy, the Marauder fails in his first attempts to stop them. Ambushing them later, the Marauder captures Celebi, electrocutes it into submission, and crushes Ash's hands until he passes out. Corrupting Celebi, the Marauder has Celebi wreak wanton destruction on the forest, intending to use it to betray Giovanni, Team Rocket's leader, and Take Over the World. Meeting resistance, the Marauder tries to directly kill Ash and Sammy and tortures Suicune when it defends them. When Celebi finally regains her senses, she dies as a result of the Marauder's abuse. Callous, and with no regard to who he hurts, the Iron-Masked Marauder was a true sociopath with no altruistic qualities to counter his evil.
- Pokémon: The Mastermind of Mirage Pokémon: Dr. Yung, AKA the Mirage Master, was a sociopathic Mad Scientist who viewed real Pokemon as being imperfect. It was his disdain towards real Pokemon that inspired him to create Mirage Pokemon. His experiments were deemed too cruel by his peers note , and he was shut down. Vowing revenge, he dons the Mirage Master alter-ego after faking his own abduction, He kidnaps Profesor Oak, and tried to emotionally torture him into giving him his password to his PC database in the hopes of hacking into worldwide Pokemon centers. He also abuses, and eventually kills, his Mew Mirage, which he viewed as a failed experiment, and he forcibly scans Pikachu's memory, thus injuring him. After he had finally gotten Oak to crack, he tries to kill him with his Mewtwo Mirage because he was no longer of use to him. Yung later planned on deploying missiles so that he could have a larger field for his Mirages, and he fully intended on releasing Mirage Mewtwo's power unto the world. Lacking regard for natural and artificial life, Yung was only motivated by his own goals.
- Diamond and Pearl:
- Cyrus lacks any of the sympathetic qualities his game counterpart has and becomes pure evil in the process. The leader of Team Galactic, Cyrus poses as a business mogul while secretly organizing destructive raids with little care as to gets hurt in the process around the Sinnoh region for the purpose of summoning Dialga and Palkia to create a perfect new world. Cyrus steps on anything and anyone to get his way, apathetic to the harm of Pokémon and humans in general, demonstrated when he utilizes a machine that sends out sound waves that cause Steel Pokémon immense pain and drives them into hostile frenzies. He coldly orders Commander Mars to utterly obliterate Iron Island and everything on it for the simple purpose of ridding himself of Ash and his friends, something he demonstrates little hesitance in doing. Cyrus is perfectly willing to employ the below-mentioned Hunter J to his cause as well, despite knowing the hunter's brutal ways, and in the end, ultimately dooms the entire universe- as well as his own loyal allies- to destruction to rule his perfect new world alone. Psychopathic and with a total Lack of Empathy, Cyrus ends as the most vile team leader to ever grace the anime.
- Pokémon Hunter J is, as her name implies. a remorseless poacher of Pokémon, who hunts rare Pokemon to sell on the black market, with little compunction or restraint in stealing them from other trainers. To do this, J petrifies the Pokémon and leaves it as a statue she keeps in storage, and is perfectly willing to petrify other humans and leave them petrified. Not only does she mistreat any and all Pokemon and people that work for her, but her callous disregard for humans and Pokémon alike is shown when J drops a section of her airship containing several of her own men for the purpose of ridding herself of ten-year-old protagonist Ash in her first appearance, as well as several Pokémon, and also later during attempts to directly kill him and his friends several times, including having her Salamence set fire to a densely-populated forest for this purpose. Brutal, sadistic, sociopathic, and unfettered J ultimately ends up complicit in a scheme which will result in the ultimate destruction of the universe, and ends as one of the only villains with no humane traits in the 800+ episodes of the anime.
- Pokémon: Zoroark: Master of Illusions: The Big Bad, Grings Kodai, is a powerful businessman who discovered one of Celebi's Time Ripples. Gaining its power at the price of annihilating the nearby city's plant life, Kodai used this power for his own greed. In the current, Kodai kidnapped a Zoroark's baby Zorua, importing the baby into another region and using blackmail to force Zoroark to terrorize innocents to make himself look good. He intended to renew his abilities by touching the Time Ripple again, at the threat of once again devastating the ecosystem solely for the money. Once Zoroark tracks Kodai down, Kodai threatens Zorua's life, electrocuting it with his gauntlet to almost fatal extents to prove he was serious. Upon being tricked by Zoroark, Kodai loses it and instead electrocutes Zoroark to death in his fury, just as the two were finally being reunited. An ambitious and selfish opportunist of the worst kind, who only cared about himself, Grings Kodai managed to be one of the most despicable humans in the Pokémon franchise.
- Pokémon: Diamond and Pearl Adventure!: Charon, while a greedy jerkass in Pokémon Platinum, is worse here. His method of introducing himself is to order his agents to suicide bomb a crowded stadium, the explosion potentially destroying the whole town were it to spread. While this fails, his intent is clear. He holds no regard for the lives of others and plans to control the world with money made from selling legendary Pokémon, as well as to extort more money from the masses by threatening them with the power of Giratina. He also does nasty experiments on Pokémon that shuts off their very hearts and essentially turn them into living weapons, Koya's Growlithe being among his victims, and we see him use a bunch of Skuntank under Mind Control as explosive weapons against the opposing trainers. Charon doesn't even treat his colleagues within Team Galactic well, as he captures the organization's previous leader, Cyrus, and tries to kill two of his top officers when they leave to find him. Cyrus goes on to rally the remaining agents against Charon, despite he himself previously trying to destroy the universe. Thinking only of himself the whole way through, Charon ends the series the sole character to reject The Power of Friendship as a concept and thus ends up thoroughly irredeemable.
- Phantom Thief Pokémon 7: Team Galactic member Io is depicted as a cold, ruthless woman who won't hesitate to eliminate anyone, even her own subordinates, standing between her and what she wants. Five years prior to the story, she kidnapped Hiori's twin sister Lily, when both kids were only five years old; registered her into Team Galactic; and conducted experiments on her mind that wiped her memory of her old life, her family, and even having ever been kidnapped. She also had Lily routinely brainwashed via her Misamagius's powers. When Lily gets her memory back and turns against Team Galactic, Io takes her frustration out of her Number Two by having her Pokemon attack him, calling him worthless before attempting to kill both Lily and her brother. Io showed no loyalty to her organization's cause and sought to usurp control within it and then Take Over the World by exploiting the powers of the Pokémon Darkrai, whose Hypnosis technique would enslave the minds of every living being so that they'd all do her bidding. When warned that this could also ravage the planet and cover it in darkness, Io doesn't care so long as she can reign supreme. She is also shown to treat Pokémon as little more than weapons that she can hurt and use to hurt, even forcibly enhancing them to make them serve her purposes better. When Darkrai breaks free from the special Poké Ball she tries to catch it in, she tries to force it under her control.