| 0 | 4001 AD | cover | 1 | pencils: Ryan Sook; inks: Ryan Sook | Rai |
| 1 | - | blank page(s) | 3 | | |
| 2 | - | credits, title page | 4 | letters: typeset | |
| 3 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: various; inks: various; colors: various; letters: typeset | |
| 4 | - | blank page(s) | 1 | | |
| 5 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: Clayton Crain; inks: Clayton Crain | Rai X; Eternal Warrior; Lemur; Lula Lee; X-Eye [Rai XI] |
| 6 | - | text story | 3 | script: Matt Kindt; pencils: David Mack; inks: David Mack; colors: David Mack | Rai X; Lula Lee |
| 7 | 4001 A.D. | comic story | 26 | script: Matt Kindt; pencils: Clayton Crain; inks: Clayton Crain; colors: Clayton Crain; letters: Dave Lanphear | Rai X; Eternal Warrior; Lemur; Lula Lee; Father; X-Eye [Rai XI]; dinosaurs; Fish-Eyes; Guide; Hunter; Lula Lee's father; Lula Lee's mother; Rai's mother (flashback) |
| 8 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: Carlos Alberto Fernández Urbano; inks: Carlos Alberto Fernández Urbano; colors: Michael Garland | X-O Manowar |
| 9 | - | blank page(s) | 1 | | |
| 10 | 4001 A.D. | comic story | 22 | script: Robert Venditti; pencils: Clayton Henry; inks: Clayton Henry; colors: Brian Reber, Andrew Dalhouse; letters: Dave Sharpe | X-O Manowar |
| 11 | 4001 A. D. | cover reprint (on interior page) | 1 | pencils: David Mack; inks: David Mack; colors: David Mack | Rai |
| 12 | - | blank page(s) | 1 | | |
| 13 | 4001 A. D. Part 1 | comic story | 22 | script: Matt Kindt; pencils: Cafu; inks: Cafu; colors: Andrew Dalhouse; letters: Dave Sharpe | Rai I [Raijin; Osamu] (first appearance, death); Rai II (first appearance); Father; The Raddies; Positronic Minds |
| 14 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: Clayton Crain; inks: Clayton Crain | X-O Manowar |
| 15 | - | blank page(s) | 1 | | |
| 16 | 4001 A.D. | comic story | 22 | script: Matt Kindt; pencils: Clayton Crain; inks: Clayton Crain; colors: Clayton Crain; letters: Dave Lanphear | Rai X; X-Eye [Rai XI]; X-O Manowar; Father; Lemur; Eternal Warrior [Gilad Anni-Padda]; Lula Lee; The Geomancer [Karana]; Grace |
| 17 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: Ryan Lee; inks: Ryan Lee; colors: Allen Passalaqua | Bloodshot |
| 18 | - | blank page(s) | 1 | | |
| 19 | 4001 A.D. | comic story | 22 | script: Matt Kindt; pencils: Clayton Crain; inks: Clayton Crain; colors: Clayton Crain; letters: Dave Lanphear | Rai X; X-Eye [Rai XI]; X-O Manowar; Father; Lemur; Eternal Warrior [Gilad Anni-Padda]; Lula Lee; The Geomancer [Karana]; Grace |
| 20 | 4001 A. D. | cover reprint (on interior page) | 1 | pencils: David Mack; inks: David Mack; colors: David Mack | Rai |
| 21 | - | blank page(s) | 1 | | |
| 22 | 4001 A. D. Part 2 | comic story | 22 | script: Matt Kindt; pencils: Cafu; inks: Cafu; colors: Andrew Dalhouse; letters: Dave Lanphear | Rai [Aboto] (first appearance); Sai [Rai]; Mary Anger (first appearance); Father; Rai I (flashback); Rai II (flashback); Rai III (flashback); Rai IV (flashback); Suicide Mob |
| 23 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: Travel Foreman; inks: Travel Foreman | |
| 24 | Shadowman; 4001 A.D. | recap | 1 | pencils: various; inks: various; colors: various; letters: typeset | |
| 25 | 4001 A.D. | comic story | 22 | script: Jody Houser, Rafer Roberts; pencils: Robert Gill; inks: Robert Gill; colors: Michael Spicer; letters: Dave Sharpe | Shadowman |
| 26 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: David Mack; inks: David Mack; colors: David Mack | Rai |
| 27 | - | blank page(s) | 1 | | |
| 28 | 4001 A.D. Part 3 | comic story | 22 | script: Matt Kindt; pencils: Cafu; inks: Cafu; colors: Andrew Dalhouse; letters: Dave Lanphear | Rai [Aboto]; Sai [Rai]; Father; Mother; Aboto |
| 29 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: Clayton Crain; inks: Clayton Crain | X-O Manowar |
| 30 | - | blank page(s) | 1 | | |
| 31 | 4001 A.D. | comic story | 22 | script: Matt Kindt; pencils: Clayton Crain; inks: Clayton Crain; colors: Clayton Crain; letters: Dave Lanphear | Rai X; X-Eye [Rai XI]; Izak; X-O Manowar; Father; Lemur (death); Eternal Warrior [Gilad Anni-Padda]; Lula Lee; The Geomancer [Karana]; Grace; Sunlight on Snow; W. A. R. Corps |
| 32 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: David Mack; inks: David Mack; colors: David Mack | War Mother |
| 33 | - | blank page(s) | 1 | | |
| 34 | A Girl and Her Gun | comic story | 28 | script: Fred Van Lente; pencils: Tomás Giorello; inks: Tomás Giorello; colors: Brian Reber; letters: Dave Sharpe | War Mother [Ana] (introduction); Flaco (introduction); Eaters-of-Meat (introduction); Proteans (introduction); Sylvan (Leader of the Grove, introduction, dies); Trogs (introduction); Iggy (Ana's son, introduction); Ignacio (Ana's husband, introduction); Caller (introduction); Greenlings (introductio |
| 35 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: David Mack; inks: David Mack; colors: David Mack | Rai |
| 36 | - | blank page(s) | 1 | | |
| 37 | 4001 A.D. Part 4 | comic story | 23 | script: Matt Kindt; pencils: Cafu; inks: Cafu; colors: Andrew Dalhouse; letters: Dave Lanphear | Rai [Aboto]; Sai [Rai]; Father |
| 38 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: Clayton Crain; inks: Clayton Crain; colors: Clayton Crain | |
| 39 | 4001 A.D. | comic story | 22 | script: Matt Kindt; pencils: Clayton Crain; inks: Clayton Crain; colors: Clayton Crain; letters: Dave Lanphear | Rai X; X-Eye [Rai XI] (death); Spylocke; Lula Lee; Eternal Warrior [Gilad Anni-Padda]; The Geomancer; Lemur; Father |
| 40 | The Summer of 4001 AD Starts Now! | cover reprint (on interior page) | 1 | pencils: Clayton Crain; inks: Clayton Crain | Rai |
| 41 | - | comic story | 5 | script: Matt Kindt; pencils: Clayton Henry; inks: Clayton Henry; colors: Brian Reber; letters: Dave Lanphear | Rai |
| 42 | 4001 A. D. | cover reprint (on interior page) | 1 | pencils: Cafu; inks: Cafu | |
| 43 | 4001 A.D. | cover reprint (on interior page) | 0.34 | pencils: Cafu; inks: Cafu | Rai [Aboto] |
| 44 | - | cover reprint (on interior page) | 0.33 | pencils: Carlos Alberto Fernández Urbano; inks: Carlos Alberto Fernández Urbano | Bloodshot |
| 45 | - | cover reprint (on interior page) | 0.33 | pencils: Ryan Lee; inks: Ryan Lee | |
| 46 | War Mother | cover reprint (on interior page) | 1 | pencils: Andres Guinaldo; inks: Andres Guinaldo; colors: Michael Spicer | War Mother [Ana] |
| 47 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: Ryan Sook | X-O Manowar; Rai; Bloodshot; X-Eye |
| 48 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: Ryan Sook; inks: Ryan Sook | X-O Manowar; Rai; Bloodshot; X-Eye |
| 49 | - | illustration | 8 | script: Matt Kindt; pencils: Cafu; inks: Cafu; colors: Andrew Dalhouse; letters: Dave Sharpe | Rai I [Raijin; Osamu] (first appearance, death); Rai II (first appearance); Father; The Raddies; Positronic Minds |
| 50 | 4001 A.D. | illustration | 2 | script: Robert Venditti; pencils: Clayton Henry; inks: Clayton Henry | X-O Manowar |
| 51 | 4001 A.D. | illustration | 4 | script: Jeff Lemire; pencils: Doug Braithwaite | Bloodshot |
| 52 | 4001 A.D.; War Mother | illustration | 4 | script: Fred Van Lente; pencils: Tomás Giorello; inks: Tomás Giorello | War Mother [Ana] |
| 53 | 4001 A.D. | cover reprint (on interior page) | 1 | pencils: Ryan Lee; inks: Ryan Lee; colors: Allen Passalaqua | Rai; Bloodshot; Shadowman; War Mother; X-O Manowar; X-Eye |
| 54 | - | blank page(s) | 3 | | |