| Song Title | Year | Album | Length | Notes |
|---|
| "1996" | 1996 | Antichrist Superstar | 4:01 | |
| "Abuse, Part 1 (There Is Pain Involved)" | 1995 | Smells Like Children (Promo Version) | 1:35 | |
| "Abuse, Part 2 (Confessions)" | 1995 | Smells Like Children (Promo Version) | 2:45 | |
| "Angel with the Scabbed Wings" | 1996 | Antichrist Superstar | 3:52 | |
| "Antichrist Superstar" | 1996 | Antichrist Superstar | 5:14 | |
| "Apple of Sodom" | 1997 | Lost Highway soundtrack | 4:26 | |
| "Are You the Rabbit?" | 2007 | Eat Me, Drink Me | 4:14 | |
| "Arma-goddamn-motherfuckin-geddon" | 2009 | The High End of Low | 3:39 | |
| "As Sick as the Secrets Within" | 2024 | One Assassination Under God – Chapter 1 | 5:35 | |
| "Astonishing Panorama of the Endtimes" | 1999 | The Last Tour on Earth | 3:59 | |
| "Baboon Rape Party" | 2003 | The Golden Age of Grotesque (UK & Japanese Editions) | 2:41 | |
| "The Beautiful People" | 1996 | Antichrist Superstar | 3:38 | |
| "Better of Two Evils" | 2003 | The Golden Age of Grotesque | 3:48 | |
| "Birds of Hell Awaiting" | 2015 | The Pale Emperor | 5:05 | |
| "Blank and White" | 2009 | The High End of Low | 4:27 | |
| "Blood Honey" | 2017 | Heaven Upside Down | 4:10 | |
| "Born Again" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 3:20 | |
| "Born Villain" | 2012 | Born Villain | 5:27 | |
| "Breaking the Same Old Ground" | 2012 | Born Villain | 4:27 | |
| "The Bright Young Things" | 2003 | The Golden Age of Grotesque | 4:19 | |
| "Broken Needle" | 2020 | We Are Chaos | 5:23 | |
| "Burning Flag" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 3:21 | |
| "Cake and Sodomy" | 1994 | Portrait of an American Family | 3:53 | |
| "Children of Cain" | 2012 | Born Villain | 5:17 | |
| "Coma Black" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 5:59 | |
| "Coma White" | 1998 | Mechanical Animals | 5:38 | |
| "The Mephistopheles of Los Angeles" | 2015 | The Pale Emperor | 4:57 | |
| "Count to Six and Die (The Vacuum of Infinite Space Encompassing)" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 3:24 | |
| "Cruci-Fiction in Space" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 4:56 | |
| "Cryptorchid" | 1996 | Antichrist Superstar | 2:44 | |
| "Cupid Carries a Gun" | 2015 | The Pale Emperor | 4:59 | |
| "Cyclops" | 1994 | Portrait of an American Family | 3:32 | |
| "Dancing with the One-Legged..." | 1995 | Smells Like Children | 0:46 | |
| "Death Is Not a Costume" | 2024 | One Assassination Under God – Chapter 1 | 4:32 | |
| "The Death Song" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 3:29 | |
| "Deep Six" | 2015 | The Pale Emperor | 5:02 | |
| "Deformography" | 1996 | Antichrist Superstar | 4:31 | |
| "The Devil Beneath My Feet" | 2015 | The Pale Emperor | 4:16 | |
| "Devour" | 2009 | The High End of Low | 3:46 | |
| "Diamonds & Pollen" | 2000 | Non-album single
B-side to "Disposable Teens" | 3:55 | |
| "Disassociative" | 1998 | Mechanical Animals | 4:50 | |
| "Disengaged" | 2012 | Born Villain | 3:25 | |
| "Disposable Teens" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 3:01 | |
| "Dogma" | 1994 | Portrait of an American Family | 3:26 | |
| "Doll-Dagga Buzz-Buzz Ziggety-Zag" | 2003 | The Golden Age of Grotesque | 4:11 | |
| "Don't Chase the Dead" | 2020 | We Are Chaos | 4:17 | |
| "Dope Hat" | 1994 | Portrait of an American Family | 4:20 | |
| "The Dope Show" | 1998 | Mechanical Animals | 3:46 | |
| "Down in the Park" | 1994 | Portrait of an American Family (Argentinian Edition) | 5:00 | Gary Numan cover |
| "Dried Up, Tied and Dead to the World" | 1996 | Antichrist Superstar | 4:16 | |
| "Eat Me, Drink Me" | 2007 | Eat Me, Drink Me | 5:40 | |
| "Empty Sounds of Hate" | 1996 | Antichrist Superstar | 1:39 | |
| "The End" | 2020 | Non-album single | 8:29 | The Doors cover |
| "Evidence" | 2007 | Eat Me, Drink Me | 5:19 | |
| "The Fall of Adam" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 2:34 | |
| "The Fight Song" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 2:55 | |
| "Filth" | 1993 | The Manson Family Album | 4:31 | |
| "The Flowers of Evil" | 2012 | Born Villain | 5:19 | |
| "Four Rusted Horses" | 2009 | The High End of Low | 5:00 | |
| "Front Towards Enemy" | 2024 | Non-album single
B-side to "Raise the Red Flag" | 4:26 | |
| "Fuck Frankie" | 1995 | Smells Like Children | 1:48 | |
| "Fundamentally Loathsome" | 1998 | Mechanical Animals | 4:49 | |
| "The Gardener" | 2012 | Born Villain | 4:24 | |
| "Get My Rocks Off" | 1999 | The Last Tour on Earth | 3:05 | Doctor Hook cover |
| "Get Your Gunn" | 1994 | Portrait of an American Family | 3:17 | |
| "GodEatGod" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 2:34 | |
| "God's Gonna Cut You Down" | 2019 | Non-album single | 2:40 | Traditional song |
| "The Golden Age of Grotesque" | 2003 | The Golden Age of Grotesque | 4:05 | |
| "Golden Years" | 1998 | "Dead Man on Campus soundtrack" | 3:49 | David Bowie cover |
| "Great Big White World" | 1998 | Mechanical Animals | 5:01 | |
| "Half-Way & One Step Forward" | 2020 | We Are Chaos | 3:16 | |
| "The Hands of Small Children" | 1995 | Smells Like Children | 1:35 | |
| "Heart-Shaped Glasses (When the Heart Guides the Hand)" | 2007 | Eat Me, Drink Me | 5:05 | |
| "Heaven Upside Down" | 2017 | Heaven Upside Down | 4:49 | |
| "Hey, Cruel World..." | 2012 | Born Villain | 3:44 | |
| "Highway to Hell" | 1999 | Detroit Rock City soundtrack | 3:46 | AC/DC cover |
| "I Don't Like the Drugs (But the Drugs Like Me)" | 1998 | Mechanical Animals | 5:03 | |
| "I Have to Look Up Just to See Hell" | 2009 | The High End of Low | 4:12 | |
| "Infinite Darkness" | 2020 | We Are Chaos | 4:15 | |
| "I Put a Spell on You" | 1995 | Smells Like Children | 3:37 | Screamin' Jay Hawkins cover |
| "I Want to Disappear" | 1998 | Mechanical Animals | 2:56 | |
| "I Want to Kill You Like They Do in the Movies" | 2009 | The High End of Low | 9:02 | |
| "If I Was Your Vampire" | 2007 | Eat Me, Drink Me | 5:56 | |
| "In the Shadow of the Valley of Death" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 4:09 | |
| "Into the Fire" | 2009 | The High End of Low | 5:15 | |
| "Irresponsible Hate Anthem" | 1996 | Antichrist Superstar | 4:17 | |
| "Jesus Crisis" | 2017 | Heaven Upside Down | 3:59 | |
| "Just a Car Crash Away" | 2007 | Eat Me, Drink Me | 4:55 | |
| "Ka-Boom Ka-Boom" | 2003 | The Golden Age of Grotesque | 4:02 | |
| "Keep My Head Together" | 2020 | We Are Chaos | 3:49 | |
| "Kill4Me" | 2017 | Heaven Upside Down | 3:59 | |
| "Kinderfeld" | 1996 | Antichrist Superstar | 4:51 | |
| "King Kill 33º" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 2:18 | |
| "Killing Strangers" | 2015 | The Pale Emperor | 5:36 | |
| "The KKK Took My Baby Away" | 2003 | We're a Happy Family: A Tribute to Ramones | 3:43 | The Ramones cover |
| "The La La Song" | 2003 | Party Monster soundtrack | 1:32 | |
| "Lamb of God" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 4:39 | |
| "The Last Day on Earth" | 1998 | Mechanical Animals | 5:01 | |
| "Lay Down Your Goddamn Arms" | 2012 | Born Villain | 4:13 | |
| "Leave a Scar" | 2009 | The High End of Low | 3:55 | |
| "Little Horn" | 1996 | Antichrist Superstar | 2:43 | |
| "The Love Song" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 3:16 | |
| "Lunchbox" | 1994 | Portrait of an American Family | 4:34 | |
| "Man That You Fear" | 1996 | Antichrist Superstar | 6:10 | |
| "May Cause Discoloration of the Urine or Feces" | 1995 | Smells Like Children | 3:59 | |
| "Mechanical Animals" | 1998 | Mechanical Animals | 4:33 | |
| "Meet Me in Purgatory" | 2024 | One Assassination Under God – Chapter 1 | 4:36 | |
| "Minute of Decay" | 1996 | Antichrist Superstar | 4:44 | |
| "Misery Machine" | 1994 | Portrait of an American Family | 13:09 | |
| "Mister Superstar" | 1996 | Antichrist Superstar | 5:04 | |
| "Mobscene" | 2003 | The Golden Age of Grotesque | 3:25 | |
| "Murderers Are Getting Prettier Every Day" | 2012 | Born Villain | 4:18 | |
| "Mutilation Is the Most Sincere Form of Flattery" | 2007 | Eat Me, Drink Me | 3:52 | |
| "My Monkey" | 1994 | Portrait of an American Family | 4:31 | |
| "New Model No. 15" | 1998 | Mechanical Animals | 3:40 | |
| "No Funeral Without Applause" | 2024 | One Assassination Under God – Chapter 1 | 4:06 | |
| "No Reflection" | 2012 | Born Villain | 4:36 | |
| "The Nobodies" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 3:35 | |
| "Obsequey (The Death of Art)" | 2003 | The Golden Age of Grotesque | 1:34 | |
| "Odds of Even" | 2015 | The Pale Emperor | 6:22 | |
| "One Assassination Under God" | 2024 | One Assassination Under God – Chapter 1 | 5:28 | |
| "Organ Grinder" | 1994 | Portrait of an American Family | 4:22 | |
| "Overneath the Path of Misery" | 2012 | Born Villain | 5:18 | |
| "Paint You with My Love" | 2020 | We Are Chaos | 4:29 | |
| "Para-noir" | 2003 | The Golden Age of Grotesque | 6:01 | |
| "Perfume" | 2020 | We Are Chaos | 3:33 | |
| "Personal Jesus" | 2004 | Lest We Forget: The Best Of | 4:06 | Depeche Mode cover |
| "Pistol Whipped" | 2012 | Born Villain | 4:10 | |
| "A Place in the Dirt" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 3:37 | |
| "Posthuman" | 1998 | Mechanical Animals | 4:17 | |
| "Prelude (The Family Trip)" | 1994 | Portrait of an American Family | 1:22 | |
| ""President Dead"" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 4:18 | |
| "Pretty as a Swastika" | 2009 | The High End of Low | 2:45 | |
| "Putting Holes in Happiness" | 2007 | Eat Me, Drink Me | 4:31 | |
| "Raise the Red Flag" | 2024 | One Assassination Under God – Chapter 1 | 4:49 | |
| "Red Black and Blue" | 2020 | We Are Chaos | 5:03 | |
| "The Red Carpet Grave" | 2007 | Eat Me, Drink Me | 4:05 | |
| "The Reflecting God" | 1996 | Antichrist Superstar | 5:36 | |
| "Revelation #12" | 2017 | Heaven Upside Down | 4:42 | |
| "Rock Is Dead" | 1998 | Mechanical Animals | 3:09 | |
| "Rock N Roll Nigger" | 1995 | Smells Like Children | 3:32 | Patti Smith cover |
| "A Rose and a Baby Ruth" | 1999 | The Last Tour on Earth | 2:17 | George Hamilton IV cover |
| "Running to the Edge of the World" | 2009 | The High End of Low | 6:26 | |
| "Sacrifice of the Mass" | 2024 | One Assassination Under God – Chapter 1 | 6:15 | |
| "Sacrilegious" | 2024 | One Assassination Under God – Chapter 1 | 3:35 | |
| "(s)AINT" | 2003 | The Golden Age of Grotesque | 3:42 | |
| "Saturnalia" | 2017 | Heaven Upside Down | 7:59 | |
| "Say10" | 2017 | Heaven Upside Down | 4:18 | |
| "Scabs, Guns and Peanut Butter" | 1995 | Smells Like Children | 1:01 | |
| "Shitty Chicken Gang Bang" | 1995 | Smells Like Children | 1:19 | |
| "Sick City" | 2000 | Released via podcast | 2:03 | |
| "Slave Only Dreams to Be King" | 2015 | The Pale Emperor | 5:20 | |
| "Slo-Mo-Tion" | 2012 | Born Villain | 4:24 | |
| "Slutgarden" | 2003 | The Golden Age of Grotesque | 4:06 | |
| "Snake Eyes and Sissies" | 1994 | Portrait of an American Family | 4:07 | |
| "♠" | 2003 | The Golden Age of Grotesque | 4:34 | |
| "Solve Coagula" | 2020 | We Are Chaos | 4:22 | |
| "The Speed of Pain" | 1998 | Mechanical Animals | 5:30 | |
| "Stigmata" | 2017 | Atomic Blonde soundtrack | 4:01 | |
| "The Suck for Your Solution" | 1997 | Private Parts soundtrack | 5:36 | |
| "Suicide Is Painless" | 2000 | Book of Shadows: Blair Witch 2 soundtrack | 3:46 | The Mash cover |
| "Sweet Dreams (Are Made of This)" | 1995 | Smells Like Children | 4:53 | Eurythmics cover |
| "Sweet Tooth" | 1994 | Portrait of an American Family | 5:03 | |
| "Sympathy for the Parents" | 1995 | Smells Like Children | 1:01 | |
| "Tainted Love" | 2003 | The Golden Age of Grotesque | 3:24 | Gloria Jones cover |
| "Target Audience (Narcissus Narcosis)" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 4:18 | |
| "Tattooed in Reverse" | 2017 | Heaven Upside Down | 4:24 | |
| "Thaeter" | 2003 | The Golden Age of Grotesque | 1:14 | |
| "They Said That Hell's Not Hot" | 2007 | Eat Me, Drink Me | 4:17 | |
| "Third Day of a Seven Day Binge" | 2015 | The Pale Emperor | 4:26 | |
| "This Is Halloween" | 2006 | The Nightmare Before Christmas soundtrack (2006 bonus disc) | 3:22 | Danny Elfman cover |
| "This Is the New Shit" | 2003 | The Golden Age of Grotesque | 4:20 | |
| "Threats of Romance" | 2017 | Heaven Upside Down | 4:37 | |
| "Tourniquet" | 1996 | Antichrist Superstar | 4:29 | |
| "Unkillable Monster" | 2009 | The High End of Low | 3:44 | |
| "Untitled" | 1998 | Mechanical Animals | 1:22 | |
| "Use Your Fist and Not Your Mouth" | 2003 | The Golden Age of Grotesque | 3:34 | |
| "User Friendly" | 1998 | Mechanical Animals | 4:17 | |
| "Valentine's Day" | 2000 | Holy Wood (In the Shadow of the Valley of Death) | 3:31 | |
| "Vodevil" | 2003 | The Golden Age of Grotesque | 4:39 | |
| "Warship My Wreck" | 2015 | The Pale Emperor | 5:57 | |
| "We Are Chaos" | 2020 | We Are Chaos | 4:00 | |
| "We Know Where You Fucking Live" | 2017 | Heaven Upside Down | 4:32 | |
| "We're from America" | 2009 | The High End of Low | 5:04 | |
| "Wight Spider" | 2009 | The High End of Low | 5:33 | |
| "Working Class Hero" | 2004 | Lest We Forget: The Best Of | 3:39 | John Lennon cover |
| "Wormboy" | 1996 | Antichrist Superstar | 3:56 | |
| "WOW" | 2009 | The High End of Low | 4:55 | |
| "Wrapped in Plastic" | 1994 | Portrait of an American Family | 5:35 | |
| "You and Me and the Devil Makes 3" | 2007 | Eat Me, Drink Me | 4:24 | |
| "You're So Vain" | 2012 | Born Villain | 4:02 | Carly Simon cover; featuring Johnny Depp |
| "15" | 2009 | The High End of Low | 4:21 | |
