Plot hole: It seems unlikely that: 1. The curator, who's short and chubby could fit into that suit of armor. 2. How he could be strong enough to lift up the table Scooby and Shaggy are hiding under at one point, 3. That the museum has no security guards who might catch the curator and his thugs during their art forgery scheme and 4. There are eyes shown moving in the suit of armor when the gang's talking to the curator despite the fact he's the Black Knight Ghost.
Continuity mistake: Shaggy and Scooby stop to play a game of pool. When Scooby looks up and notices the ape head trophy has vanished, he has 4 of the balls by him, including the 6 ball. It cuts over to Shaggy, and he has the exact same set of balls next to him. (00:14:50)
Continuity mistake: Scooby finds a half eaten hamburger in a plate on the floor. When the camera cuts further back to show Shaggy, the plate has moved on the floor, as noted by the lines between boards and the placement of the plate and the spider web on the wall. (00:07:20)
Continuity mistake: When Shaggy makes the joke about living without a smart Ape Man, he's lying on his stomach with his legs in the air behind him. His feet are apart as he relaxes. Then suddenly in the same shot, they just jump close together and then slowly spread back apart. (00:06:50)