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Scooby-Doo Mystery is two distinct licensed adventure games with the same title released close to the same time for the Sega Genesis and SNES respectively. Acclaim published both versions, though they have separate developers. Both versions of the game are based on the Scooby Doo (Franchise) TV franchise. The Sega Genesis version of the game is a "point-and-click" in the vein of a LucasArts or Sierra (Company) graphic adventure game. It features two episodes where Scooby and Shaggy are on their own to solve the mysteries solo. The player controls Shaggy while Scooby accompanies him everywhere that he goes. Scooby will sometimes give the player hints by pointing at objects they may need, or places of interest. The player searches through each location to find items and clues that will help them solve each mystery. The Super Nintendo version of the game is a 2D side-scrolling action game based around searching through different locales for clues to solve the mystery. The player controls Scooby and Shaggy, who can search different rooms for various items, and sniff out hidden ones. Shaggy can speak to members of the gang to accomplish different goals.
The SNES version has recurring enemies, some of which can be leaped over while others - like the "ghost pirates" - need special items to temporarily eliminate them. Shaggy can only carry three items at once, and this includes trap items and Scooby Snacks. The player must be careful to save a space for new clue items when they find them.
Each episode involves the gang driving to a reportedly haunted locale and trying to figure out what, or who, is behind all the ruckus. In both cases Shaggy and Scooby end up being the only ones left to solve the mystery.