It's been a year since Sally was crowned Queen of Halloween Town and royalty is taking its toll. Torn between her noble duties and her wish of uniting the citizens across the Hinterlands, she's stretched at the seams and feeling unsure of her future.

When a potion demonstration goes horribly wrong, Sally tumbles through a mysterious portal with her new rag doll apprentice Luna. Finding themselves in Time Town, they discover that someone has tampered with the clock that controls Halloween Town and unless they find the culprit, they will never be able to return to the present-day.

Can Sally uncover the truth and return to Halloween Town to reunite with Jack before time runs out?