The Farmer gets fed up with Courage's incompetence, and begins looking for a professional to make Courage better. The Perfectionist appears, an old Victorian schoolteacher who carries a large wooden ruler and speaks in a commanding tone. The Perfectionist begins showing Courage how to be perfect, but he fails at all the assignments. Courage must find a way to be "perfect" or get rid of The Perfectionist.

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After Courage sees a list of missing dogs, a flashback appears showing how Courage's parents got sent into outer space by an evil veterinarian. Muriel and Eustace take Courage to the same veterinarian to get him checked out. But the veterinarian plans to send Muriel and Eustace to outer space. Determined not to lose his owners like his parents, he must rescue them before they too suffer the same fate.

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Eustace and Muriel never returned a book named "The Pixie and the Prickle Pirate," so they become characters in the book until Courage pays the fine. So Courage tries to find ways of gaining money, even making a performance of Eustace and Muriel as characters

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Courage finds a two year overdue book. When he decides to return it, he does not have enough money for the $10,000 fee, so the librarian casts a spell on Muriel and Eustace, turning them into the characters from the book until Courage finds enough money to pay the fee for the book.

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The Farmer is in an exceptionally bitter mood, taking note of all the attention Muriel gives to Courage. The last straw breaks when Muriel gives Courage a colorful new blanket that The Farmer assumed she was knitting for him. He decides to get rid of Courage once and for all. He gathers many of Courage's former "enemies" and they create a plan of attack. In order to lure Courage into the plot, The Farmer has Muriel kidnapped. Courage must find a way to save Muriel and himself.

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Two multi-armed aliens come to Earth to find an antidote for a disease that makes everyone on their planet beat each other up with their arms. They expriment on Eustace and Muriel, only to find they don't have the antibodies to get the cure. Courage had the cure in him the whole time, and the aliens get it.

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Ashamed at what happened to her husband, the wife of the Chicken from Outer Space sends their three-headed son to destroy Courage. When they land, they try to just zap him, but they hit Eustace instead. Then they tried a bomb disguised as an egg, but Courage puts it in the toilet, and blows up Eustace. And they finally try tieing Courage up and running over him with a train. The three-headed chicken fails and starts getting in a fight with itself. They start crying because it's mother said that if they don't kill Courage, they can't come home. The middle head always carries a camera, so Courage has them take pictures of Courage being tortured. With that, the chicken bades farewell, but Eustace, Muriel, and Courage end up looking like a three-headed chicken.

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A pregnant space-faring squid who creates stars lands on the farm. Eustace plans to sell her eggs to the military for research. Courage has to save the eggs and the mother squid to keep the heavens twinkling.

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Muriel and Courage make the house look like a pirate theme, Eustace isn't too thrilled about it. Muriel and Courage are dressed up in pirate clothes. The three of them eat seafood, then all of the sudden comes a dragon. He eats Eustace, and chases after Muriel and Courage. The dragon tells them he wishes he could fly, and if Courage could teach him how to fly, he would not eat them. Courage, after many attempts, tries to make him fly, but fails. The dragon doesn't want to eat them, but has no choice, so he continues to chase them through the town of Nowhere, and into the jungle. Once Courage and Muriel get to a body of water in the jungle, another dragon appears, who is friendly because he is a water dragon who just eats seafood. The other dragon finds out this water dragon is his long lost brother, and he wasn't meant to fly since he is also a water dragon. Courage, Muriel, and the two water dragons eat some seafood together. The one dragon spits out Eustace, but a bad flying dragon flies overhead and eats him again.

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Unimpressed by Jojo the Dolphin's performance at a local aquarium, Eustace challenges the sea mammal to a race, losing pathetically. He demands a rematch, staking his wife as the prize of the race.

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Muriel refuses to talk after Eustace keeps ignoring her, so Shirley makes a giant starfish attack and it can only be stopped at the sound of Muriel's voice.

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The family is taking a tour of the Great Wall of China, led by their tour guide, Di Lung. Muriel is suddenly abducted, orchestrated by Di Lung in the service of his godmother: the Empress Dowager of China. The Empress has kept the people of China in her thrall, but now the secret source of her power -- the magic silkworm -- has transcended to another world. The only way the Empress can contact the silkworm is through the bones of a genuine soul... and Muriel, innocent source of tranquility, is that soul. Courage must find a way to rescue Muriel before her bones are extracted.

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A strange, dog-hating woman named Kitty, wearing a mask, appears at the Bagges' house. She recklessly starts beating Courage and she tells the Bagges that her best friend Bunny fell in love with a gangster named Mad Dog, who treats Bunny as a slave, and when she tried to flee with Bunny, she was threatened. Courage then tries to free Bunny.

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At a county fair, a mysterious paper-cutter offers to make full-size cameo silhouettes of Muriel and the Farmer. Back at the Farmhouse, Muriel mounts the cameos on the wall and heads upstairs to bed. Courage sees the silhouettes moving in their picture-frames, and screams as the cameos pull themselves free and head upstairs. The sinister silhouettes drape themselves over the sleeping Farmer and Muriel and steal their souls, pulling the life force out of them both and leaving only their inanimate bodies behind. The silhouettes "fill out" into three dimensions, still made of paper but shaped like real people now. Courage must find a way to get the silhouettes to leave so that Muriel and the Farmer can return.

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After a missile explodes over the farmhouse, Muriel finds a giant carrot growing in her garden. After eating it, Muriel begins to expand. On TV, the General warns Nowhere about the missile and says only he can disarm it. Using a computer camera, Courage sees a carrot robot. Courage goes in and eats it, then gets burped out. As courage begins to expand, he goes to General, who goes inside Courage and disarms the carrot. Courage burps them up, only to have Eustace eat it. Because the carrot was not properly disabled, Eustace explodes.

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Muriel's back starts to hurt, so Eustace takes her to Dr. Vindaloo because she can't make him any food in that condition. He tells them they must go to a top of Mount Nowhere, where a hot spring is located in order to heal her. Courage, Muriel, and Eustace head up toward the mountain. On top lives a goat, who has been neglected by humans, trashing his habitat, and draining up the spring. Eventually, he was the only one left, and now, he chases people off the island by hitting them with his horns. After the goat tells his story, he makes Muriel and Courage hold up gigantic rocks for torture. Courage then accidentally re-opens the hot spring and he cleans up the garbage. The goat and Muriel return to normal health by relaxing in the spring.

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The truck crashes into a swamp one night and Muriel loses her new locket, which holds a picture of her inside it. The locket descends into the murky swamp and is found by the Swamp Monster, who sees Muriel's picture and believes she is his long-lost love. He vows to find her and bring her home. Swamp Monster tracks Muriel down and takes her to the swamp to be his bride. Courage must locate his REAL long-lost love and save Muriel.

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It's the first day of hunting season, and Eustace goes hunting to prove he's better then his dead brother, Horace. He uses Horace's old gun, a laser gun! Courage goes with him to makes sure he's safe. Eustace spots a bunch of deer and fails to shoot them. The father deer then gets his own laser gun and goes after Eustace! Courage says he can settle this by having a game show with the deer and Eustace called, "Hunt For Knowledge." The deer wins. Eustace tries to shoot him, but instead he hits a bear's lollipop. When he asks who shot it, Eustace takes the deer's antlers and says he's a deer. But then hunters come by and think he's a deer and shoot him. His head gets mounted on a car.

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Muriel gets a terrible cold, and after a while, she sees a talking slug that wants help. Following directions, Courage and Muriel go to a swamp where there are slugs that are ruled by a snake named Big Bayou. He sheds his skin and makes the slugs make statues out of them. They say Bayou has a magic book that will free them and cure Muriel. Courage gets the book and cures Muriel. Bayou then comes after him, and he bites the book, and his venom magically makes the snake-skin statues attack him. Muriel uses her nail-file to free the slugs.

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The windmill is broken. Courage finds that whenever the windmill stops... four armored skeletons on horseback come towards him! He finds signs on the windmill vanes and his computer says they are mystic signs made by the first owner of the farm house. Vandals who had a broken paddle wheel needed energy, so they tried to steal the windmill, but the owner put mystic signs on them to keep them away. Whenever, it stops, the ghosts of the vandals come back... and they want to cut everyone's head off! The windmill eventually gets fixed and the skeletons go away.

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Le Quack returns with a new scheme: he replaces Muriel's cookie recipe with one that calls for "rare Swedish vinegar" - then arrives on the scene to take her to Sweden in a hot air balloon so she can get some. His plan is to use her to steal money from the Piggy Bank of Sweden, and Courage must find a way to save her.

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Lonely Dr. Gerhart wants some neighbors, but his jealous old house fends them away. So he "brings" the Bagges' farm next to his house. But Gerhart's house intends on destroying the Bagges' home, and Courage has to find a way to make the house happy again.

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Muriel's "Uncle Angus" invites her to Scotland, where he imprisons her and demands that she makes thousands of kilts. It's up to Courage to learn Uncle's real name and free Muriel.

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The Bagges go to the junkyard to hunt for useful trash, and Courage finds a nutcracker. But two man-eating rats want to feast on Muriel and Eustace. After Eustace is captured, Courage must get Muriel away from the rats.

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The Bagge's yard gets flouded, Eustace and Muriel go for a swim. Everything is alright until the water rises too high and enters their house. Courage paddles around in the water to the town of Nowhere and stops when he sees a beaver putting up a dam. Courage trys to ask him nicely to stop building it because it ruining there home, but the beaver just hits him with his tail. Courage then finds out the beaver's real love is for music and not construction. The beaver starts to hit his tail as a rythem on the dam.Courage picks the string on his yo-yo, like an instrument. The beaver's tale constatly hiting the dam eventually breaks it. Courage's house's water level drys up to nothing. Muriel and Eustace then attend a concert in a local karaoke-type place to watch Courage and the beaver play their instruments.

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