List of Scooby-Doo! Mystery Incorporated episodes

This is a list of episodes for the animated television series Scooby-Doo! Mystery Incorporated, the eleventh incarnation of Hanna-Barbera's Scooby-Doo series of Saturday morning cartoons. The series is produced by Warner Bros. Animation. Unlike any previous series, Scooby-Doo! Mystery Incorporated features an overarching story. In addition to the traditional cases they always solve, the team finds itself being nudged into the uncovering of a dark secret that is hidden in the past of Crystal Cove, covered up by parties unknown. Following cryptic hints from a faceless mystery-man known only as "Mr. E" (a play on "mystery"), they find themselves caught up in the unsolved, decades-old case of the disappearance of four mystery-solving youths and their pet — the original Mystery Incorporated.

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A slime mutant that lives underneath Crystal Cove is cocooning anyone who gets in its way. Despite being warned not to continue investigating by their parents and authority figures, the gang attempts to solve the mystery. Meanwhile, Velma is trying to get Shaggy to be more intimate in their secret relationship. Daphne also keeps hinting her romantic feelings towards Fred who is oblivious to almost everything apart from solving mysteries and building traps. After solving the mystery the gang comes into contact with a mysterious man who refers to himself as "Mr. E" and remarks that they have uncovered "a truth that should have remained buried" and that "the real mystery has just begun".

Overarching Mystery Events: A locket shaped like a magnifying glass found in the Crystal Cove caves and a call from Mr. E.

Villain: The Slime Mutant/Professor Emmanuel Raffalo

The gang receives a package from Mr. E that contains a new handbag made in Gatorsburg. They travel to Gatorsburg to investigate the mystery of the Gator People. Velma becomes angry with Shaggy for not telling Scooby about their relationship. After being forced to spend the night at a local hotel the gang ultimately solves the mystery. Afterward, they find a note from Mr. E in the Mystery Machine telling them that this mystery "is only one piece of the puzzle".

Overarching Mystery Events: Hotel sign reading "The dog dies!" and Mr. E's note claiming that Gatorsburg is "one piece of the puzzle".

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