| Season One | 22 color episodes in 60 minute format | |||
|---|---|---|---|---|
| Ep | PN | Airdate | Title | |
| 1 | 4C79 | Oct 25/96 | Pilot | |
| 2 | 4C01 | Nov 01/96 | Gehenna | |
| 3 | 4C02 | Nov 08/96 | Dead Letters | |
| 4 | 4C04 | Nov 15/96 | The Judge | |
| 5 | 4C05 | Nov 22/96 | 522666 | |
| 6 | 4C03 | Nov 29/96 | Kingdom Come | |
| 7 | 4C06 | Dec 06/96 | Blood Relatives | |
| 8 | 4C07 | Dec 20/96 | The Well-Worn Lock | |
| 9 | 4C08 | Jan 03/97 | Wide Open | |
| 10 | 4C10 | Jan 10/97 | The Wild and the Innocent | |
| 11 | 4C09 | Jan 24/97 | Weeds | |
| 12 | 4C11 | Jan 31/97 | Loin Like a Hunting Flame | |
| 13 | 4C12 | Feb 07/97 | Force Majeure | |
| 14 | 4C13 | Feb 14/97 | The Thin White Line | |
| 15 | 4C14 | Feb 21/97 | Sacrament | |
| 16 | 4C16 | Mar 21/97 | Covenant | |
| 17 | 4C15 | Mar 28/97 | Walkabout | |
| 18 | 4C17 | Apr 18/97 | Lamentation | |
| 19 | 4C18 | Apr 25/97 | Powers, Principalities, Thrones and Dominions | |
| 20 | 4C19 | May 02/97 | Broken World | |
| 21 | 4C20 | May 09/97 | Maranatha | |
| 22 | 4C21 | May 16/97 | Paper Dove | |
| Season Two | 23 color episodes in 60 minute format | ||||
|---|---|---|---|---|---|
| Ep | PN | Airdate | Days | Title | |
| 23 | 5C01 | Sep 19/97 | The Beginning and the End | ||
| 24 | 5C02 | Sep 26/97 | 826 | Beware of the Dog | |
| 25 | 5C03 | Oct 03/97 | 819 | Sense and Antisense | |
| 26 | 5C04 | Oct 17/97 | 805 | Monster | |
| 27 | 5C05 | Oct 24/97 | A Single Blade of Grass | ||
| 28 | 5C07 | Oct 31/97 | 790 | The Curse of Frank Black | |
| 29 | 5C06 | Nov 07/97 | 19:19 | ||
| 30 | 5C08 | Nov 14/97 | 779 | The Hand of Saint Sebastian | |
| 31 | 5C09 | Nov 21/97 | Jose Chung's Doomsday Defense | ||
| 32 | 5C11 | Dec 19/97 | Midnight of the Century | ||
| 33 | 5C10 | Jan 09/98 | 721 | Goodbye Charlie | |
| 34 | 5C12 | Jan 23/98 | Luminary | ||
| 35 | 5C13 | Feb 06/98 | The Mikado | ||
| 36 | 5C15 | Feb 27/98 | The Pest House | ||
| 37 | 5C14 | Mar 06/98 | 672 | Owls (Part 1) | |
| 38 | 5C16 | Mar 13/98 | 656 | Roosters (Part 2) | |
| 39 | 5C17 | Mar 20/98 | 652 | Siren | |
| 40 | 5C18 | Apr 03/98 | In Arcadia Ego | ||
| 41 | 5C19 | Apr 17/98 | Anamnesis | ||
| 42 | 5C20 | Apr 24/98 | A Room With No View | ||
| 43 | 5C21 | May 01/98 | Somehow, Satan Got Behind Me | ||
| 44 | 5C22 | May 08/98 | 602 | The Fourth Horseman (Part 1) | |
| 45 | 5C23 | May 15/98 | 595 | The Time is Now (Part 2) | |
| Season Three | 22 color episodes in 60 minute format | |||
|---|---|---|---|---|
| Ep | PN | Airdate | Title | |
| 46 | 3ABC01 | Oct 02/98 | The Innocents (Part 1) | |
| 47 | 3ABC02 | Oct 09/98 | Exegesis (Part 2) | |
| 48 | 3ABC03 | Oct 16/98 | TEOTWAWKI | |
| 49 | 3ABC04 | Oct 23/98 | Closure | |
| 50 | 3ABC05 | Oct 30/98 | ...Thirteen Years Later | |
| 51 | 3ABC06 | Nov 06/98 | Skull and Bones | |
| 52 | 3ABC07 | Nov 13/98 | Through a Glass, Darkly | |
| 53 | 3ABC09 | Dec 11/98 | Human Essence | |
| 54 | 3ABC08 | Dec 18/98 | Omerta | |
| 55 | 3ABC10 | Jan 15/99 | Borrowed Time | |
| 56 | 3ABC11 | Jan 22/99 | Collateral Damage | |
| 57 | 3ABC12 | Feb 05/99 | The Sound of Snow | |
| 58 | 3ABC13 | Feb 12/99 | Antipas | |
| 59 | 3ABC14 | Feb 19/99 | Matryoshka | |
| 60 | 3ABC15 | Mar 19/99 | Forcing the End | |
| 61 | 3ABC16 | Apr 09/99 | Saturn Dreaming of Mercury | |
| 62 | 3ABC18 | Apr 16/99 | Darwin's Eye | |
| 63 | 3ABC17 | Apr 23/99 | Bardo Thodol | |
| 64 | 3ABC19 | Apr 30/99 | Seven and One | |
| 65 | 3ABC20 | May 07/99 | Nostalgia | |
| 66 | 3ABC21 | May 14/99 | Via Dolorosa (Part 1) | |
| 67 | 3ABC22 | May 21/99 | Goodbye to All (Part 2) | |
| 7ABX05 | Nov 28/99 | Millennium (The X-Files episode) | ||
