| 1 | 1993/01 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| | | FC by PB (silver metallic enhanced) • 2nd printing | |
| Ti: | Muses of fire! | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: Patrick R. Broderick - L: John Costanza - C: Christie Scheele | |
| Pe: | Doctor Doom [2099] | |
| 2 | 1993/02 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | The action of the Tiger | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Beatty - L: John Costanza - C: Christie Scheele | |
| Pe: | Doctor Doom [2099] | |
| 3 | 1993/03 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | Unto the breach | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Beatty - L: John Costanza - C: Christie Scheele | |
| Pe: | Doctor Doom [2099] | |
| 4 | 1993/04 | | $1,25 |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | Fire answers fire | 23 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Beatty - L: John Costanza - C: Christie Scheele - Ed: Joey Cavalieri - E-i-C: Tom DeFalco | |
| 5 | 1993/05 | | $1,25 |
| | Cover | Patrick R. Broderick, John Nyberg | 1 |
| Ti: | This man condemned | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Christie Scheele - Ed: Joey Cavalieri - E-i-C: Tom DeFalco | |
| Pe: | Doctor Doom [2099] | |
| 6 | 1993/06 | | ? |
| | Cover | Patrick R. Broderick, John Nyberg | 1 |
| Ti: | Tripping the light fantastic | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Christie Scheele | |
| Pe: | Doctor Doom [2099] | |
| 7 | 1993/07 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | A region of ether and sighs! | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Christie Scheele | |
| Pe: | Doctor Doom [2099] | |
| 8 | 1993/08 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | Emperor of the mind | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Christie Scheele | |
| Pe: | Doctor Doom [2099] | |
| 9 | 1993/09 | | ? |
| | Cover | Ernie Colon | 1 |
| Ti: | The spirits within me! | 22 |
| Cr: | W: Ernie Colon - P/L: Ernie Colon - I/F: Ernie Colon - L: Rod Ollerenshaw - C: [N.G.] | |
| Pe: | Doctor Doom [2099] | |
| 10 | 1993/10 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | Breakdown | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Christie Scheele | |
| Pe: | Doctor Doom [2099] | |
| 11 | 1993/11 | | ? |
| | Cover | Patrick R. Broderick, John Nyberg | 1 |
| Ti: | Faith and revival | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: George Roussos, Christie Scheele | |
| Pe: | Doctor Doom [2099] | |
| 12 | 1993/12 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | Fire and reign | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Michael Thomas | |
| Pe: | Doctor Doom [2099] | |
| 13 | 1994/01 | | ? |
| | Cover | Patrick R. Broderick, John Nyberg | 1 |
| Ti: | Harvest of a quiet eye | 22 |
| Cr: | W: John Francis Moore - P/L: Enrique Alcatena - I/F: Enrique Alcatena - L: John Costanza - C: Christie Scheele | |
| Pe: | Doctor Doom [2099] | |
| 14 | 1994/02 | | ? |
| | Cover | Ron Lim, Tom Smith | 1 |
| | | All covers of the The Fall of the Hammer story arc link up to one big picture. | |
| Ti: | The Fall of the Hammer 4/5: The anvil or the hammer | 23 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Christie Scheele | |
| Pe: | Doctor Doom [2099] | |
| 15 | 1994/03 | | ? |
| | Cover | Patrick R. Broderick, John Nyberg | 1 |
| Ti: | Heaven's net | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: George Roussos | |
| Pe: | Doctor Doom [2099] | |
| 16 | 1994/04 | | ? |
| | Cover | ? | 1 |
| | | FC by ? (Cover signed "SRK NEH") | |
| Ti: | Long live... King Doom the First! | 22 |
| Cr: | W: Ernie Colon - P/L: Ernie Colon - I/F: Ernie Colon - L: Rod Ollerenshaw - C: Michael Thomas | |
| Pe: | Doctor Doom [2099] | |
| 17 | 1994/05 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | Radian and reunion | 22 |
| Cr: | W: Peter David, John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Christie Scheele | |
| Pe: | Doctor Doom [2099] | |
| 18 | 1994/06 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | Communion | 23 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Christie Scheele | |
| Pe: | Doctor Doom [2099] | |
| 19 | 1994/07 | | ? |
| | Cover | Patrick R. Broderick, John Nyberg | 1 |
| Ti: | Uncreated night | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: George Roussos | |
| Pe: | Doctor Doom [2099] | |
| 20 | 1994/08 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| | | After "Cavalieri" | |
| Ti: | Strangers in the jungle | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Christie Scheele | |
| Pe: | Doctor Doom [2099] | |
| 21 | 1994/09 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | Savage decline | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Joe Andreani | |
| Pe: | Doctor Doom [2099] | |
| 22 | 1994/10 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | The narrow world | 22 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Joe Andreani | |
| Pe: | Doctor Doom [2099] | |
| 23 | 1994/11 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | Seize the day | 23 |
| Cr: | W: John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Joe Andreani | |
| Pe: | Doctor Doom [2099] | |
| 24 | 1994/12 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| | | Inspired by cover of Thor (I) #142 by Jack Kirby | |
| Ti: | Island of lost souls | 22 |
| Cr: | W: Warren Ellis, John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Joe Andreani | |
| Pe: | Doctor Doom [2099] | |
| 25 | 1995/01 | | $2,25 |
| | Cover | Patrick R. Broderick | 1 |
| | | FC by RB (regular) • FC by RB (silver metallic enhanced) • BC by RB | |
| Ti: | Fables of the deconstruction | 22 |
| Cr: | W: Warren Ellis, John Francis Moore - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Joe Andreani | |
| Pe: | Doctor Doom [2099] | |
| Ti: | [Public Enemy Prequel] 1/2: Seeing red | 7 |
| Cr: | W: Pat Mills, Tom Skinner - P/L: Luke Ross - I/F: Keith Williams - L: David Sharpe - C: Ian Laughlin | |
| Pe: | Public Enemy, Public Enemy [2099] | |
| Ti: | Reflections of a falling star | 10 |
| Cr: | W: Mary Jo Duffy - P/L: Leopoldo Duranona - I/F: Leopoldo Duranona - L: Hector Formento - C: Mike Thomas | |
| Pe: | Feng Huang, Huang Feng | |
| | Ft: | Feature(s) | |
| 26 | 1995/02 | 2099 Heft | $1,50 |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | Ramparts | 22 |
| Cr: | W: Warren Ellis - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Joe Andreani - Ed: Joey Cavalieri - E-i-C: Bobbie Chase | |
| Pe: | Doctor Doom [2099] | |
| 27 | 1995/03 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | Barricades | 22 |
| Cr: | W: Warren Ellis - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Joe Andreani | |
| Pe: | Doctor Doom [2099] | |
| 28 | 1995/04 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | Borderlines | 22 |
| Cr: | W: Warren Ellis - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Joe Andreani | |
| Pe: | Doctor Doom [2099] | |
| 29 | 1995/05 | | $3,50 |
| | Cover | Patrick R. Broderick | 2 |
| | | FC by RB (transparent foil) | |
| Ti: | One Nation under Doom Crossover: American caesar | 30 |
| Cr: | W: Warren Ellis - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Joe Andreani - Ed: Joey Cavalieri - E-i-C: Bobbie Chase | |
| | Ft: | Feature(s) | |
| 30 | 1995/06 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | One Nation under Doom Crossover: American way | 22 |
| Cr: | W: Warren Ellis - P/L: Patrick R. Broderick - I/F: John Nyberg - L: John Costanza - C: Ben Sean | |
| 31 | 1995/07 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | One Nation under Doom Crossover: American dream | 22 |
| Cr: | W: Warren Ellis - P/L: David Klein - I/F: David Klein - L: John Costanza - C: Ben Sean | |
| Pe: | Doctor Doom [2099] | |
| 32 | 1995/08 | | ? |
| | Cover | ? | 1 |
| Ti: | One Nation under Doom Crossover: Rise | 22 |
| Cr: | W: Warren Ellis - P/L: John Royle - I/F: Scott Koblish - L: John Costanza - C: Malibu's (Violent) Hues, Megan McDowell | |
| Pe: | Doctor Doom [2099] | |
| 33 | 1995/09 | | ? |
| | Cover | Patrick R. Broderick | 1 |
| Ti: | One Nation under Doom Crossover: Fall | 22 |
| Cr: | W: Warren Ellis - P/L: Steve Pugh - I/F: Scott Koblish - L: John Costanza - C: Malibu's (Violent) Hues, Megan McDowell | |
| Pe: | Doctor Doom [2099] | |
| 34 | 1995/10 | | ? |
| | Cover | Howard Chaykin | 1 |
| Ti: | One Nation under Doom Crossover: To begin the world again | 22 |
| Cr: | W: Warren Ellis - P/L: Steve Pugh - I/F: Scott Koblish - L: John Costanza - C: Malibu's (Violent) Hues, Megan McDowell | |
| Pe: | Doctor Doom [2099] | |
| 35 | 1995/11 | | ? |
| | Cover | Bill Sienkiewicz | 1 |
| Ti: | One Nation under Doom Crossover: To bring you my love | 22 |
| Cr: | W: Warren Ellis - P/L: Steve Pugh - I/F: Scott Koblish - L: John Costanza - C: Malibu's (Violent) Hues, Megan McDowell | |
| Pe: | Doctor Doom [2099] | |
| 36 | 1995/12 | | ? |
| | Cover | Ashley Wood | 1 |
| Ti: | X-Nation Crossover: Shockriding 1/3: Street legal | 22 |
| Cr: | W: Warren Ellis - P/L: Steve Pugh - I/F: Scott Koblish - L: John Costanza - C: Malibu's (Violent) Hues, Megan McDowell | |
| Pe: | Doctor Doom [2099] | |
| 37 | 1996/01 | | ? |
| | Cover | Chris Sprouse, Mark Farmer | 1 |
| | | Covers of Doom 2099 #37, Ghost Rider 2099 #21, Spider-Man 2099 #39 and X-Men 2099 #28 link up to one big picture. | |
| Ti: | X-Nation Crossover: Shockriding 2/3: Road iron | 22 |
| Cr: | W: Warren Ellis - P/L: Ashley Wood - I/F: James Daly, Scott Koblish - L: John Costanza - C: Malibu's (Violent) Hues, Megan McDowell | |
| Pe: | Doctor Doom [2099] | |
| 38 | 1996/02 | | ? |
| | Cover | Ashley Wood | 1 |
| Ti: | X-Nation Crossover: Shockriding 3/3: Expressway to your skull | 22 |
| Cr: | W: Warren Ellis - P/L: Steve Pugh - I/F: Scott Koblish - L: John Costanza - C: Malibu's (Violent) Hues, Megan McDowell | |
| Pe: | Doctor Doom [2099] | |
| 39 | 1996/03 | | ? |
| | Cover | John Buscema, James Palmiotti | 1 |
| Ti: | May the circle be unbroken | 18 |
| Cr: | W: Warren Ellis - P/L: John Buscema - I/F: Scott Koblish - L: John Costanza - C: Malibu's (Violent) Hues, Megan McDowell | |
| Pe: | Doctor Doom [2099] | |
| Ti: | The night before yesterday | 4 |
| Cr: | W: Tom Peyer - P/L: John Buscema - I/F: Scott Koblish - L: John Costanza - C: Malibu's (Violent) Hues, Megan McDowell | |
| 40 | 1996/04 | | ? |
| | Cover | John Buscema, James Palmiotti | 1 |
| Ti: | Rage Against Time 1/4: Visitation | 22 |
| Cr: | W: Tom DeFalco - P/L: John Buscema - I/F: Scott Koblish - L: John Costanza - C: Malibu's (Violent) Hues, Megan McDowell | |
| Pe: | Doctor Doom [2099] | |
| 41 | 1996/05 | | ? |
| | Cover | Humberto Ramos | 1 |
| Ti: | Rage Against Time 2/4: Burn | 22 |
| Cr: | W: Tom Peyer, Evan Skolnick - P/L: John Royle - I/F: Harry Candelario, Scott Koblish, Josef Rubinstein - L: John Costanza - C: Malibu's (Violent) Hues, Megan McDowell | |
| Pe: | Doctor Doom [2099] | |
| 42 | 1996/06 | | ? |
| | Cover | John Buscema, James Palmiotti | 1 |
| Ti: | Rage Against Time 3/4: Bitter choices | 22 |
| Cr: | W: Tom DeFalco - P/L: Jeff Lafferty - I/F: Harry Candelario, Josef Rubinstein, Vince Russell, Karl Story, Williams - L: Comicraft, Richard Starkings - C: Ed Lazellari, Malibu's (Violent) Hues | |
| Am: | Story continues in Fantastic Four (I) #413 | |
| Pe: | Doctor Doom [2099] | |
| 43 | 1996/07 | | ? |
| | Cover | Jeff Lafferty, Vince Russell | 1 |
| Ti: | Rage Against Time 4/4: Homecoming | 23 |
| Cr: | W: John Francis Moore - P/L: Jeff Lafferty - I/F: Allen Milgrom, Josef Rubinstein, Vince Russell - L: Comicraft, Richard Starkings - C: Ed Lazellari, Malibu's (Violent) Hues | |
| Am: | Story continues in Fantastic Four 2099 #7 | |
| Pe: | Doctor Doom [2099] | |
| 44 | 1996/08 | | ? |
| | Cover | Jeff Lafferty, Brad Britz | 1 |
| Ti: | Entangling alliances | 20 |
| Cr: | W: John Francis Moore - P/L: Jeff Lafferty - I/F: Dan Panosian, Andrew Pepoy, Josef Rubinstein, Vince Russell - L: Comicraft, Richard Starkings - C: Ed Lazellari, Malibu's (Violent) Hues | |
| Am: | Continued in 2099: World of Tomorrow #1 | |
| Pe: | Doctor Doom [2099] | |