What the Hex is Going On? - S1-E6
Continuity mistake: Shaggy is seen holding a multiple folded piece of paper in a left side shot of The Mystery Machine, but the paper has disappeared in the next shot of the gang through the windshield.
Starring: Frank Welker, Don Messick, Casey Kasem, Nicole Jaffe
What the Hex is Going On? - S1-E6
Continuity mistake: Shaggy is seen holding a multiple folded piece of paper in a left side shot of The Mystery Machine, but the paper has disappeared in the next shot of the gang through the windshield.

Don't Fool With a Phantom - S2-E8
Continuity mistake: The gang find Jonny tied up in a chair and he says it wasn't a publicity stunt. Both his arms are tied up to his sides by the rope. It cuts from the close up to show them all again, and suddenly Jonny is holding his hand to his head and Fred is suddenly pulling on the rope, his arm outside of the rope. (00:02:45)
Shaggy: Scooby-Snacks won't work on me this time.
Daphne: Would you do it for a Shaggy-Snack? A little something I whipped up.
Shaggy: Huh? A Shaggy-Snack?
Daphne: Yes, it's a pot-pie, with pizza crust, anchovies, pepperoni, cherries, all in a thick chocolate sauce.
Shaggy: Hahahaha! I'll do it! I'll do it!
Trivia: During the chase scene, there is an advert on the wall which says "H&B Tuna Co." - a reference to Hanna-Barbera.
Scooby's Night With a Frozen Fright - S2-E4
Question: Is Daphne holding her breath when the gang is in the tank underwater?