| 0 | Marvel Knights border trade dress | cover | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 1 | Marvel Knights Punisher The Complete Collection Vol. 2 | illustration | 1 | pencils: Steve Dillon; inks: Steve Dillon; colors: Matt Milla, Avalon | Punisher |
| 2 | - | credits, title page | 2 | letters: typeset | |
| 3 | 6 [The Punisher #6] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 4 | Do Not Fall in New York City | comic story | 22 | script: Garth Ennis; pencils: Steve Dillon; inks: Jimmy Palmiotti; colors: Chris Sotomayor; letters: Comicraft's Wes, RS | Punisher; Joe |
| 5 | 7 [The Punisher #7] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 6 | 'Nuff Said | comic story | 22 | script: Steve Dillon; pencils: Steve Dillon; inks: Jimmy Palmiotti; colors: Chris Sotomayor | Punisher |
| 7 | Marvel Knights Double Shot #1 | cover reprint (on interior page) | 1 | pencils: Glenn Fabry; inks: Glenn Fabry; colors: Glenn Fabry | the Punisher [Frank Castle]; Daredevil [Matt Murdock] |
| 8 | Roots | comic story | 11 | script: Garth Ennis; pencils: Joe Quesada; inks: Danny Miki; colors: Chris Chuckry; letters: RS, Comicraft's Wes! | Don Signore; the Punisher [Frank Castle] |
| 9 | 13 [The Punisher #13] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 10 | A Good Clean Fight | comic story | 22 | script: Garth Ennis; pencils: Steve Dillon; inks: Steve Dillon; colors: Avalon's Steve Oliff; letters: Comicraft's Wes, RS | Punisher |
| 11 | 14 [The Punisher #14] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 12 | Killing La Vida Loca | comic story | 22 | script: Garth Ennis; pencils: Steve Dillon; inks: Steve Dillon; colors: Avalon's Matt Milla; letters: Comicraft's Wes, RS | Punisher |
| 13 | 15 [The Punisher #15] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 14 | The Exclusive | comic story | 22 | script: Garth Ennis; pencils: Darick Robertson; inks: Nelson; colors: Avalon's Matt Milla; letters: Richard Starkings, Comicraft's Wes | Punisher; Soap; Chuck Self (death); The Mob (villains) |
| 15 | 16 [The Punisher #16] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher; Wolverine |
| 16 | Vertical Challenge | comic story | 22 | script: Garth Ennis; pencils: Darick Robertson; inks: Darick Robertson; colors: Avalon's Matt Milla; letters: Richard Starkings, Comicraft's Wes | Punisher; Wolverine; Soap; The Mob (villains) |
| 17 | 17 [The Punisher #17] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher; Wolverine |
| 18 | Aim Low | comic story | 22 | script: Garth Ennis; pencils: Darick Robertson; inks: Darick Robertson; colors: Avalon's Matt Milla; letters: RS, Comicraft's Wes | Punisher; Wolverine (guest); Tony Casino (villain, death); The Mob (villains) |
| 19 | 18 [The Punisher #18] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 20 | Downtown | comic story | 22 | script: Garth Ennis; pencils: Steve Dillon; inks: Steve Dillon; colors: Avalon's Matt Milla; letters: Comicraft's Wes, RS | Punisher |
| 21 | 19 [The Punisher #19] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 22 | Of Mice and Men | comic story | 22 | script: Garth Ennis; pencils: Steve Dillon; inks: Steve Dillon; colors: Avalon's Matt Milla; letters: Comicraft's Wes, RS | Punisher; Joan the Mouse (guest); The Mob (villains); Ma Gnucci (cameo flashback); The Russian (cameo flashback); Mr. Bumpo (cameo flashback); Spacker Dave (cameo flashback) |
| 23 | 20 [The Punisher #20] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Frank Castle, Punisher |
| 24 | Brotherhood Part One | comic story | 22 | script: Garth Ennis; pencils: Steve Dillon; inks: Steve Dillon; colors: Avalon's Matt Milla; letters: Rich, Wes @ Comicraft | Frank Castle, Punisher |
| 25 | 21 [The Punisher #21] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 26 | Brotherhood Part Two | comic story | 22 | script: Garth Ennis; pencils: Steve Dillon; inks: Steve Dillon; colors: Avalon's Matt Milla; letters: Rich, Comicraft's Albert | Punisher |
| 27 | 22 [The Punisher #22] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 28 | Brotherhood Conclusion | comic story | 22 | script: Garth Ennis; pencils: Steve Dillon; inks: Steve Dillon; colors: Avalon's Matt Milla; letters: Richard Starkings | Punisher |
| 29 | 23 [The Punisher #23] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 30 | Squid | comic story | 22 | script: Garth Ennis; pencils: Steve Dillon; inks: Steve Dillon; colors: Matt Milla; letters: Dave Sharpe | Punisher |
| 31 | 24 [The Punisher #24] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 32 | Hidden Part One | comic story | 22 | script: Garth Ennis; pencils: Tom Mandrake; inks: Tom Mandrake; colors: Matt Milla; letters: Dave Sharpe | Punisher |
| 33 | 25 [The Punisher #25] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 34 | Hidden Part Two | comic story | 22 | script: Garth Ennis; pencils: Tom Mandrake; inks: Tom Mandrake; colors: Matt Milla; letters: Dave Sharpe | Punisher |
| 35 | 26 [The Punisher #26] | cover reprint (on interior page) | 1 | pencils: Tim Bradstreet; inks: Tim Bradstreet; colors: Tim Bradstreet | Punisher |
| 36 | Hidden Part Three | comic story | 22 | script: Garth Ennis; pencils: Tom Mandrake; inks: Tom Mandrake; colors: Matt Milla; letters: Dave Sharpe | Punisher |
| 37 | Letters Page from Punisher #6 | text article | 1 | script: Garth Ennis, Stuart Moore | |
| 38 | 'Nuff Said | text article | 5 | script: Steve Dillon | |
| 39 | Welcome to Belfast, Big Lad | text story | 16 | script: Garth Ennis, Steve Dillon; pencils: Steve Dillon; inks: Steve Dillon; colors: Avalon's Matt Milla | |
| 40 | Punisher #19 Script | text story | 18 | script: Garth Ennis, Steve Dillon; pencils: Steve Dillon; inks: Steve Dillon; colors: Avalon's Matt Milla | |
| 41 | Unused Page from Punisher #25 | illustration | 1 | script: Tom Mandrake; pencils: Tom Mandrake; inks: Tom Mandrake; colors: Matt Milla | |
| 42 | - | illustration | 1 | pencils: Steve Dillon; inks: Jimmy Palmiotti; colors: Chris Sotomayor | Punisher |