I'm on a roll why stop now?
Season 2
Episode 27: The Fugitoid
Fuigitoid #1
http://www.ninjaturtles.com/comics/m...d/fugitoid.htm
Volume 1 #5
http://www.ninjaturtles.com/comics/m...me01/05/05.htm
Episode 28: The Trouble with Triceratons
Volume 1 #5
http://www.ninjaturtles.com/comics/m...me01/05/05.htm
Episode 29: The Big House
Volume 1 #6
http://www.ninjaturtles.com/comics/m...me01/06/06.htm
Episode 30: The Arena
Volume 1 #6
http://www.ninjaturtles.com/comics/m...me01/06/06.htm
Episode 31: Triceraton Wars
Volume 1 #6
http://www.ninjaturtles.com/comics/m...me01/06/06.htm
Episode 32: Secret Origins Part 1
Volume 1 #7
http://www.ninjaturtles.com/comics/m...me01/07/07.htm
Episode 33: Secret Origins Part 2
New story
Episode 34: Secret Origins Part 3
New story
Episode 35: The Ultimate Ninja
New story
Episode 36: Reflections
New story
Episode 37: Modern Love - The Return of Nano
New story
Episode 38: What a Croc!
Loosely
Volume 1 #45
http://www.ninjaturtles.com/comics/m...me01/45/45.htm
Episode 39: Return to the Underground
New story
Episode 40: City at War Part 1
Robot attack/Foot building destroyed/Karai Intro - Volume 1 #52
http://www.ninjaturtles.com/comics/m...me01/52/52.htm
Battle with foot and robots - Volume 1 #53
http://www.ninjaturtles.com/comics/m...me01/53/53.htm
Warehouse explosion - Volume 1 #54
http://www.ninjaturtles.com/comics/m...me01/54/54.htm
Episode 41: City at War Part 2
Water tower hideout - Volume 1 #51
http://www.ninjaturtles.com/comics/m...me01/51/51.htm
Karai's arrival to New York - Volume 1 #55
http://www.ninjaturtles.com/comics/m...me01/55/55.htm
Water tower explosion/Leo captured - Volume 1 #56
http://www.ninjaturtles.com/comics/m...me01/56/56.htm
Episode 42: City at War Part 3
Captured Leo/Raph reusing alliance - Volume 1 #57
http://www.ninjaturtles.com/comics/m...me01/57/57.htm
Karai and turtles seal the deal - Volume 1 #58
http://www.ninjaturtles.com/comics/m...me01/58/58.htm
Karai dresses as Shredder and baits Elite - Volume 1 #59
http://www.ninjaturtles.com/comics/m...me01/59/59.htm
Fight with Elites - Volume 1 #60
http://www.ninjaturtles.com/comics/m...me01/60/60.htm
Good bye to Karai/Deal - Volume 1 #61
http://www.ninjaturtles.com/comics/m...me01/61/61.htm
Worms - Volume 1 #21
http://www.ninjaturtles.com/comics/m...me01/21/21.htm
Episode 43: Junklantis
New story
Episode 44: The Golden Puck
Volume 1 #14
http://www.ninjaturtles.com/comics/m...me01/14/14.htm
Episode 45: Rogue in the House Part 1
Volume 1 #20
http://www.ninjaturtles.com/comics/m...me01/20/20.htm
Episode 46: Rogue in the House Part 2
Character Zog
http://www.ninjaturtles.com/comics/m...me01/20/20.htm
Episode 47: April's Artifact
Loosely - Mirage Special - Time's Pipeline
http://www.ninjaturtles.com/comics/m...ipeline/tp.htm
Episode 48: Return of the Justice Force
Volume 1 #15
http://www.ninjaturtles.com/comics/m...me01/15/15.htm
Episode 49 - 52: Big Brawl
Character - Usagi/Gen
Several issues none matching this story
New story
Man that "City At War" part was a hard one. Enjoy! Again appreciate help anything I might have missed.