Captain of the High School Baseball Team - Shot by Chief Wiggum.
Seymour Skinner, Nelson Muntz, Kearney Zzyzwicz, Dolph Starbeam, J. Loren Pryor, Jimbo Jones, Doris Freedman, Gary Chalmers and Groundskeeper Willie - Crushed when the devil destroyed the school under Bart's orders.
Mascots including Lard Lad - Died after nobody looked at them.
Martin Prince - Strangled to death by Willie.
Sherri and Terri, Nelson Muntz, Ralph Wiggum, Jimbo Jones, Kearney Zzyzwicz, and Dolph Starbeam - Killed by Willie in numerous ways.
Groundskeeper Willie - Burned to ashes.
Homer Simpson - Collapses into pieces in the third dimension.
FOX Censor - Stabbed to death by the TV Parental Guidance screen bug.
Edna Krabappel, Elizabeth Hoover, Herman Hermann, Comic Book Guy, Kirk Van Houten, Brandine Spuckler, Luann Van Houten, Milhouse Van Houten, Rod Flanders, Todd Flanders, Helen Lovejoy, Bumblebee Man, Timothy Lovejoy, Jr., Krusty the Clown, Charlie, Gary Chalmers, Lindsey Naegle, Jeremy Freedman, Joe Quimby, Kent Brockman, Luann Van Houten, Agnes Skinner, Jessica Lovejoy, Nelson Muntz, Sherri, Terri, Abraham Simpson, and Old Jewish Man - Vaporized when the bomb hit Springfield.
Johnny and Edgar Winter - Ran over by Homer.
Charles Montgomery Burns, Barney Gumble, Apu Nahasapeemapetilon, Carl Carlson, Lenny Leonard, Moe Szyslak, Sideshow Mel, Waylon Smithers, Jr., Clancy Wiggum, Ned Flanders, Cletus Spuckler, Otto Mann, Seymour Skinner, Lionel Hutz, Groundskeeper Willie, Captain Horatio McCallister, and Dr. Hibbert - Turned into mutants and shot by Marge, Bart, and Lisa with shotguns.
Luann Van Houten, Agnes Skinner, and Elizabeth Hoover - Burned at the stake.
Lisa Simpson - Killed by the angry mob after Homer accused her of being a witch.
Marge and Abraham Simpson - Staked in the heart by an angry mob.
Bart Simpson - Killed by an angry mob with a bear trap.
Homer Simpson - Choked on a piece of broccoli.
Agnes Skinner - Dropped by ghost Homer.
Simpson Children - Seen as skeletons.
Goldilocks - Mauled by the bears.
Rapunzel - Scalp ripped off by Homer.
Suzanne the Witch - Burned to ashes.
Captain Horatio McCallister - Killed by the dolphins.
Squeaky-Voiced Teen - Killed by the dolphins.
Kent Brockman - Killed by the dolphins.
Apu Nahasapeemapetilon, Akira, Comic Book Guy, Carl Carlson, Reverend Lovejoy, Hans Moleman, Gil Gunderson, Raphael, Fat Tony, Louie, Legs, Luigi, Luann Van Houten, Lunchlady Doris, Montgomery Burns,Waylon Smithers, Disco Stu, Cookie Kwan, Judge Constance Harm, Lionel Hutz, Sideshow Bob, and Arnie Pye - Died in the battle.
Groundskeeper Willie - Killed by the dolphins.
Many Springfieldians including Krusty the Clown - Drowned.
Abraham Simpson - Burned by Homer with a flaming log.
Homer Simpson - Shot by Marge.
Jasper - Death touched by Homer.
Homeless Man - Death touched by Homer.
Baseball Crowd (Including Lindsey Naegle, Kirk Van Houten, Reverend Lovejoy, and Hans Moleman) - Death touched by Homer.
The Queen - Hit in the head with a baseball.
Patty Bouvier - Death touched by Homer.
Ned Flanders - Heart ripped out by Jonathan Frink, Sr.
Seymour Skinner - Spine ripped out by Jonathan Frink, Sr.
5 Scientists - Brains removed by Jonathan Frink, Sr.
Sideshow Mel, Very Tall Man, Bumblebee Man, Superintendant Chalmers, Eddie, Snake Jailbird, Reverend Lovejoy, Otto Mann, Cletus Spuckler, Clancy Wiggum, and Apu Nahasapeemapetilon - Body Parts ripped off by Jonathan Frink, Sr.
Jonathan Frink, Sr. - Kicked in the groin by Jonathan Frink.
Lenny, Carl, Barney, Bumblebee Man, Reverend Lovejoy, Sideshow Mel, Mr. Largo, Dr. Nick, Dr. Hibbert, Principal Skinner, Groundskeeper Willie, Apu, Otto, Lou, Squeaky-Voice Teen, Kirk Van Houten, Kent Brockman, Comic Book Guy, Blue-Haired Lawyer, Krusty the Clown, the Yes Guy, and Captain McCallister - Shot by Mr. Burns.
Moe Szyslak and Clancy Wiggum - Impaled on a weather vane.
Professor Frink - Eaten by Homer
Charles Montgomery Burns and Waylon Smithers - Knocked out by Marge with pans.