Timmy Turner, as Cleft, The Boy Chin Wonder, enters the comic book world only to find his favorite hero, The Crimson Chin in need of rescue. Riding the magic of his Fairy Godparents, Cosmo and Wanda, the transformed Timmy encounters fiendish foes like Country Boy, Spatula Woman, the Bronze Knee Cap, futuristic Masked Bunnies, and evil Vicky the Babysitter and her dog Doidle. Special moves let Timmy crawl, crouch, climb, attack, fly, dash, jump, and tackle.
The Fairly OddParents! Enter the Cleft features five episodes, each with four stages. Players will guide Timmy through The Comic Book World, The Primitive Age, The Present World, and The Future World, encountering strange and exotic locales like Jurassic Mountain, jungles, caverns, Dimmsdale, Vicky's intestines (Spatula Woman's hiding place), and the futuristic Megalopolis. In a final hidden stage, Cleft must defeat Jorgen Von Strangle in an effort to protect his godparents' status as magical fairies.
The many weapons at Timmy's disposal include items like a water pistol, a gyro (for flying), a baseball bat, megaphone, and skateboard, while power-ups come in various forms such as a magic wand, crown, sticking beam, Chompy (a fearless goat), big punches, and his godparents. To keep his strength up, the Cleft will need cheese, hot dogs, and beefsteaks, and can find icons that provide an extra life. The game is based on the Nickelodeon animated series and features a password save system.