First Printing: January, 2004

"Not Forgotten"

By Murphy and Dario Brizuela

First Printing: March, 2004

"Seeds of Destruction"

By Murphy and Jim Lawson

First Printing: May, 2004

"The Worms of Madness" Part One

By Murphy and Rick Remender

First Printing: July, 2004

"The Worms of Madness" Part Two

By Murphy and Rick Remender

First Printing: September, 2004

"Blind Faith"

By Jim Lawson

First Printing: November, 2004

"Scars"

By Dean Clarrain and Chris Allan

First Printing: January, 2005

"Darkness Weaves"

By Murphy, Eric Talbot and Jim Lawson

First Printing: February, 2005

"Virus"

By Dan Berger and Peter Laird

First Printing: March, 2005

"The Path"

By Jim Lawson

First Printing: April, 2005

"Kaddish"

By Murphy and D'Israeli

First Printing: May, 2005

"The Quick and the Dead"

By Murphy and Scott Cohn

First Printing: June, 2005

"Paris Nocturne"

By Murphy and Dario Brizuela

First Printing: July, 2005

"Loops" Part One

By Murphy and Rick Remender

First Printing: August, 2005

"Loops" Part Two

By Murphy, Rick Remender & Mike Manley

First Printing: August, 2005

"Hell's Blacktop"

By Murphy and Jim Lawson

First Printing: August, 2005

"Sins of the Past"

By Murphy and Doug Rice

First Printing: August, 2005

"Wrong Turn"

By Jim Lawson, Murphy and Peter Laird

First Printing: December, 2005

"Altered Fates"

By Murphy and Dario Brizuela

First Printing: January, 2006

"A Ghost Story"

By Ross May, Murphy and Chris Allan

First Printing: January, 2006

"The Trophy," "The Cure," & "The Rippling"

By Murphy, Jake Black, Ray-Anthony Height, Jim Lawson & Fernando Pinto

First Printing: March, 2006

"A (Bull) Wrinkle In Time"

By Ryan Brown, Murphy and Dario Brizuela

First Printing: April, 2006

"Change of Power"

By Ross May and Scott Cohn

First Printing: May, 2006

"Attack of the Replicants"

By Dan Berger and Peter Laird

First Printing: June, 2006

"Rock of Ages"

By Murphy and Mike Hawthorne

First Printing: July, 2006

Anniversary issue with three stories and a pin-up gallery.

By various

First Printing: August, 2006

"The Value of Gold"

By Murphy and Diego Jourdan

First Printing: September, 2006

"White Horses"

By Dean Clarrain and Chris Allan

First Printing: October, 2006

"Shanghaied"

By Murphy and Steve Rolston

First Printing: October, 2006

Reprints Tales of the TMNT Volume II #1, 10, 16, 18 & 26

By various creators

First Printing: November, 2006

"Soul Survivor"

By Dave White

First Printing: January, 2007

Reprints Tales of the TMNT Volume II #5 and all four issues of "Tales of Leonardo: Blind Sight"

By Jim Lawson

First Printing: December, 2006

"Circle of Darkness"

By Bill Moulage and Dario Brizuela

First Printing: January, 2007

"Reflections"

By Quinn Johnson and Andres Ponce

First Printing: February, 2007

"The Eye of Aga-Moo-Tou"

By Ryan Brown, Murphy and Dario Brizuela

First Printing: April, 2007

"The Bait"

By Bill Moulage and Mike Manley

First Printing: May, 2007

"Splinter Cell"

By Dan Berger, Peter Laird and Jim Lawson

First Printing: June, 2007

"The Pantheon"

By Dean Clarrain and Chris Allan

First Printing: June, 2007

Reprints Tales of the TMNT Volume II #6, 20, 24, 27 and 28

By various creators

First Printing: July, 2007

"To Serve and Protect"

By Tristan Jones and Paul Harmon

First Printing: August, 2007

"Casey In Point"

By Jake Black and Diego Jourdan

First Printing: September, 2007

"Triptyche"

By Ryan Brown, Murphy and Dario Brizuela

First Printing: June, 2007

Reprints Tales of the TMNT Volume II #3, 4, 13, 14 and 33

By various creators

First Printing: October, 2007

"What Wolves Wear"

By Dan Berger and Andie Tong

First Printing: November, 2007

"Silent Night"

By Murphy and Diego Jourdan

First Printing: December, 2007

"Swan Song"

By Murphy and Steph Dumais

First Printing: January, 2008

"The Curious Case of Mr. Jones"

By Dan Berger and Jim Lawson

First Printing: February, 2008

"The Proposal"

By Peter Laird, Dan Berger and Jim Lawson

First Printing: February, 2008

Reprints Tales of the TMNT Volume II #2, 9, 15, 17 and 25.

By Jim Lawson and Murphy

First Printing: March, 2008

"The Amulet"

By Jake Black, Murphy and Dario Brizuela

First Printing: April, 2008

"Rocks"

By Jim Lawson

First Printing: May, 2008

"Temps"

By Dan Berger and Jim Lawson

First Printing: July, 2008

"The Secret Origins of the Super Turtles"

By Jake Black and Jim Lawson

First Printing: July, 2008

"The Decider"

By Jake Black and Jim Lawson

First Printing: August, 2008

"Mined Games"

By Dan Berger and Jim Lawson

First Printing: September, 2008

"World's Deadliest"

By Ryan Brown, Tristan Jones and Paul Harmon

First Printing: October, 2008

"Night of the Living Gingerbread"

By Dan Berger

First Printing: November, 2008

"The Crystal at the Heart of the World"

By Ryan Brown, Murphy and Dario Brizuela

First Printing: December, 2008

"Alien Invaders"

By Jim Lawson

First Printing: January, 2009

"Mere Appendix"

By Andrew Bonia and Bob LeFevre

First Printing: February, 2009

"A Day in the Life"

By Dan Berger and Jim Lawson

First Printing: March, 2009

"Hun"

By Tristan Jones and Paul Harmon

First Printing: April, 2009

"Gangs All Here"

By Dan Berger and Jim Lawson

First Printing: May, 2009

"All Tomorrow's Yesterdays"

By Ryan Brown, Murphy and Dario Brizuela

First Printing: June, 2009

"Exposé"

By Tristan Jones and Paul Harmon

First Printing: July, 2009

"Nobody Does It Better"

By Dan Berger and Jim Lawson

First Printing: August, 2009

"Sometimes They Come Back"

By Tristan Jones and Andres Ponce

First Printing: September, 2009

"Adventures in Bunnysitting"

By Ryan Brown and Fernando Leon Gonzalez

First Printing: October, 2009

"Monster Island"

By Ryan Brown, Dan Berger and Jim Lawson

First Printing: November, 2009

"The Burning Man"

By Tristan Jones and Jim Lawson

First Printing: December, 2009

"Cold, Cold Ice"

By Dan Berger

First Printing: January, 2010

"There's No Place Like Home"

By Dan Berger and Jim Lawson

First Printing: February, 2010

"Schooled"

By Dan Berger and Dario Brizuela

First Printing: March, 2010

"Heroes in a Half Cell"

By Jake Black and Jim Lawson

First Printing: April, 2010

"Dark Shadows"

By Dan Berger

First Printing: May, 2010

"Return to New York" Book 1.5

By Jim Lawson and Eric Talbot