Premium Hollywood has ranked 31 memorable Halloween episodes. "The Mummy in the Maze" (one of my top Bones faves) comes in at #7.
7. Bones, “The Mummy in the Maze”: Booth and Brennan are called in to investigate after the mummified remains of a teenage girl are found in a Halloween-themed maze. Then the mummified remains of another teenage girl are found at a Halloween amusement park funhouse. Basically, when the team finds out a third teenage girl is missing, they realize that they’ve got an Oct. 31st deadline. But who am I kidding? The best bit about this episode is seeing Emily Deschanel filling out a Wonder Woman costume.If you scroll down a bit further you can see John Francis Daley in a Freaks and Geeks mention as well, at #12.