| 0 | Jigsaw Puzzle | cover | 1 | pencils: Joe Jusko; inks: Joe Jusko; colors: Joe Jusko | Punisher; U.S. Agent; Paladin |
| 1 | Title Page and Credits | credits, title page | 3 | pencils: Joe Jusko; inks: Joe Jusko | |
| 2 | - | cover reprint (on interior page) | 1 | pencils: Joe Jusko; inks: Joe Jusko; colors: Joe Jusko | Punisher; U.S. Agent; Paladin |
| 3 | No Escape | comic story | 48 | script: Gregory Wright; pencils: Tod Smith; inks: Danny Bulanadi; colors: Gregory Wright, Steve White; letters: Ken Lopez; editing: Don Daley | Punisher; U.S. Agent; Paladin; Microchip; The Mob |
| 4 | Jigsaw Puzzle Part 1: Jigsaw's Back | cover reprint (on interior page) | 1 | pencils: Bill Reinhold; inks: Bill Reinhold | Jigsaw |
| 5 | Jigsaw Puzzle | comic story | 22 | script: Mike Baron; pencils: Bill Reinhold; inks: Mark Farmer; colors: Brad Vancata; letters: Ken Lopez; editing: Don Daley | Punisher; Microchip; Jigsaw; The Rev |
| 6 | Jigsaw Puzzle Part 2 | cover reprint (on interior page) | 1 | pencils: Mark Texeira; inks: Mark Texeira | Punisher; Jigsaw |
| 7 | The Neighborhood Defense Fund | comic story | 22 | script: Mike Baron; pencils: Mark Texeira; inks: Mark Texeira; colors: Bob Budiansky; letters: Ken Lopez; editing: Don Daley | Punisher [Frank Castle]; Jigsaw; The Rev |
| 8 | Jigsaw Puzzle Part 3 of 6 | cover reprint (on interior page) | 1 | pencils: Tom Morgan; inks: Tom Morgan | Punisher |
| 9 | Perilous Passage | comic story | 22 | script: Mike Baron; pencils: Mark Texeira; inks: Mark Texeira; colors: Bob Budiansky; letters: Ken Lopez; editing: Don Daley | Punisher; Jigsaw; The Rev |
| 10 | Jigsaw Puzzle Part 4 of 6 | cover reprint (on interior page) | 1 | pencils: Bill Reinhold; inks: Bill Reinhold | Jigsaw |
| 11 | Basuco | comic story | 22 | script: Mike Baron; pencils: Bill Reinhold; inks: Mark Farmer; colors: Linda Lessmann; letters: Ken Lopez; editing: Don Daley | Punisher; Jigsaw |
| 12 | Jigsaw Puzzle Part 5 of 6 | cover reprint (on interior page) | 1 | pencils: Denys Cowan; inks: Denys Cowan | Punisher |
| 13 | A Man of Wealth and Taste | comic story | 22 | script: Mike Baron; pencils: Jack Slamn; inks: James Sherman; colors: James Sherman; letters: Ken Lopez; editing: Don Daley | Punisher; Jigsaw; The Rev |
| 14 | Jigsaw Puzzle Part 6 of 6: He Who Lives...Wins! | cover reprint (on interior page) | 1 | pencils: Bill Reinhold; inks: Bill Reinhold | Punisher |
| 15 | The End of the Game | comic story | 22 | script: Mike Baron; pencils: Bill Reinhold; inks: Mark Farmer; colors: Gregory Wright; letters: Chris Eliopoulos, Ken Lopez; editing: Don Daley | Punisher; Jigsaw; The Rev (Death); Belasco |
| 16 | Original Art | illustration | 1 | pencils: Mark Texeira; inks: Mark Texeira | |
| 17 | Special I [Punisher skull] NY Issue! | cover reprint (on interior page) | 1 | pencils: Bill Reinhold; inks: Bill Reinhold | Punisher; Waterboys |
| 18 | Should a Gentleman Offer a Tiparello to a Lady? | comic story | 22 | script: Mike Baron; pencils: Bill Reinhold; inks: John Nyberg, Tony DeZuniga, José Marzán Jr., Mickey Ritter; colors: Ed Lazellari; letters: Ken Lopez; editing: Don Daley | Punisher; Nick Fury; Microchip; Waterboys [actually 3 women] |
| 19 | - | cover reprint (on interior page) | 1 | pencils: Ron Wagner; inks: Andy Kubert | Punisher |
| 20 | St. Paradines | comic story | 22 | script: Mike Baron; pencils: Mark Texeira; inks: Mark Texeira; colors: Bob Budiansky; letters: Ken Lopez; editing: Don Daley | Punisher; Microchip |
| 21 | Germany Has the Autobahn. Now Mexico Has the Slaughter-Bahn! | cover reprint (on interior page) | 1 | pencils: Bill Reinhold; inks: Bill Reinhold | Punisher [Frank Castle] |
| 22 | Border Run | comic story | 22 | script: Mike Baron; pencils: Bill Reinhold; inks: Bill Reinhold; colors: Linda Lessmann; letters: Ken Lopez; editing: Don Daley | Punisher [Frank Castle]; Dr. Alonzo Garcia (villain) |
| 23 | - | cover reprint (on interior page) | 1 | pencils: Mike Harris; inks: Mike Harris | Punisher |
| 24 | The Prize | comic story | 62 | script: Chris Henderson; pencils: Mike Harris; inks: Mike Harris; colors: John A. Wilcox; letters: Janice Chiang; editing: Terry Kavanagh | Punisher; Microchip; Arms Dealers; Iron Man (Gray Armor) |
| 25 | Star-Spangled Burner! | cover reprint (on interior page) | 1 | pencils: Andy Kubert; inks: Andy Kubert | Punisher [Frank Castle] |
| 26 | Flag Burner | comic story | 22 | script: Mike Baron; pencils: Neil Hansen; inks: Neil Hansen; colors: Linda Lessmann; letters: Jade Moede, Ken Lopez; editing: Don Daley | Punisher [Frank Castle]; Arc Light; Sheriff Bob (dies); Harlan (dies); Hubert Brooks (mentioned); Wilson; Phipps; Joan; Harold Meecham; Brian Meecham; Arn; Bob; Karl; Sally; Matthew (dies) |
| 27 | - | cover reprint (on interior page) | 1 | pencils: Ron Wagner; inks: Ron Wagner | Punisher |
| 28 | One Way Fare | comic story | 20 | script: Chuck Dixon; pencils: Tod Smith; inks: Danny Bulanadi; colors: John Wellington; letters: Ken Lopez; editing: Don Daley | Punisher; Microchip |
| 29 | Pin-Up Gallery | illustration | 1 | pencils: Whilce Portacio; inks: Scott Williams | Punisher |
| 30 | Pin-Up | illustration | 1 | pencils: Cooper Smith; inks: Mickey Ritter | Punisher |
| 31 | Cold Cache! | cover reprint (on interior page) | 1 | pencils: Hugh Haynes; inks: Bud La Rosa | Punisher; Microchip |
| 32 | Cold Cache | comic story | 21 | script: Mike Baron; pencils: Hugh Haynes; inks: Bob Wiacek, Bud La Rosa, Jimmy Palmiotti, Vince Evans, Rodney Ramos, Santiago Oliveras; colors: John Wellington; letters: Ken Lopez; editing: Don Daley | Punisher; Microchip |
| 33 | Caught--In a Desert Storm! | cover reprint (on interior page) | 1 | pencils: Karl Kesel, Hugh Haynes, John Romita; inks: Terry Austin | Punisher |
| 34 | The Brattle Gun Part One | comic story | 20 | script: Mike Baron; pencils: Hugh Haynes; inks: José Marzán Jr.; colors: John Wellington; letters: Ken Lopez; editing: Don Daley | Punisher; Microchip; Saracen; Rose (cameo) |
| 35 | Next Stop: Baghdad! | cover reprint (on interior page) | 1 | pencils: Hugh Haynes; inks: Terry Austin | Punisher |
| 36 | The Brattle Gun Part Two | comic story | 20 | script: Mike Baron; pencils: Hugh Haynes; inks: Jimmy Palmiotti; colors: Gregory Wright; letters: Ken Lopez; editing: Don Daley | Punisher; Microchip; Rose; Saracen |
| 37 | Pin-Up | illustration | 1 | script: Mike Baron; pencils: Andre Coates; inks: Keith Williams | Punisher |
| 38 | Pin-Up | illustration | 1 | script: Mike Baron; pencils: Mark Pacella; inks: Al Williamson | Punisher |
| 39 | The Von Strucker Gambit Part Two | cover reprint (on interior page) | 1 | pencils: Michael Golden; inks: Klaus Janson; colors: Joe Rosas | Punisher; Captain America [Steve Rogers]; Daredevil |
| 40 | Genesis of a Vigilante | comic story | 3 | script: Mike Baron; pencils: Tom Morgan; inks: Tom Morgan; colors: Paul Mounts; letters: Jim Novak; editing: Don Daley | Punisher (Origin retold) |
| 41 | The Cutting Edge | comic story | 25 | script: Gregory Wright, Dan Chichester; pencils: John Hebert; inks: Jimmy Palmiotti, Don Hudson, Jim Reddington; colors: Gregory Wright, Ed Lazellari, Sarra Mossoff; letters: Jade Moede; editing: Don Daley | Punisher; Takimoto (Death); Dakini; Nick Fury; S.H.I.E.L.D.; Guillotine; Nori Okun (Death); Baron Strucker |
| 42 | Fat Farm | comic story | 11 | script: Mike Baron; pencils: Tom Morgan; inks: Tom Morgan; colors: Brad Vancata; letters: Mike Heisler; editing: Don Daley | Microchip; Rudy Thurston; Eddie Lewis; Punisher (cameo) |
| 43 | A Public Service Message | comic story | 3 | script: George Caragonne; pencils: Mike Harris; inks: Stan Drake; colors: Joe Rosas; editing: Don Daley | Punisher; The Mob |
| 44 | Blaze of Glory | illustration | 1 | pencils: Spyder; inks: Spyder | Punisher |
| 45 | Shattered | illustration | 1 | pencils: Val Mayerik; inks: Val Mayerik | Punisher |
| 46 | You Can't Fool Me | illustration | 1 | pencils: Michael Golden; inks: Michael Golden | Punisher |
| 47 | Straight Shooter | illustration | 1 | pencils: Tod Smith; inks: Jack Abel | Punisher |