When the guard holds his arm out to let Shaggy and Scooby in the palace, his goatee is missing.
When the Caliph falls out of his chair and his eyeglasses break, the lenses shatter, and broken glass shards fly up. In the next shot of the Caliph, the lenses are still intact in the frames and are merely cracked.
Scooby's dog tags change color several times throughout the movie.
The box cover of the first DVD edition incorrectly suggests that Yogi and Boo Boo Bear interact with Scooby and Shaggy during the adventure. In fact, they never meet each other within the feature.