The second season of CatDog premiered on February 15, 1999 with Send in the CatDog and ended on March 16, 2000 with the Freak Show.
List of episodes[]
| # | Title | Airdate |
| "Send in the CatDog" | February 15, 1999 | |
| "Fishing for Trouble" | February 15, 1999 | |
| "Fetch" | February 15, 1999 | |
| "The Lady is a Shriek" | February 16, 1999 | |
| "Dog the Mighty" | February 16, 1999 | |
| "Hail the Great Meow Woof" | February 17, 1999 | |
| "Battle of the Bands" | February 17, 1999 | |
| "Adventures in Greaser Sitting" | February 18, 1999 | |
| "The Cat Club" | February 18, 1999 | |
| "Cat Diggety Dog" | February 18, 1999 | |
| "Climb Every CatDog" | February 19, 1999 | |
| "Canine Mutiny" | February 19, 1999 | |
|
26a |
"Fred The Flying Fish" | February 22, 1999 |
| 26b | "CatDog Divided" | February 22, 1999 |
| 27a | "The Unnatural" | February 23, 1999 |
| 27b | "Dog Ate It" | February 23, 1999 |
| 27c | "Dopes on Slopes" | February 23, 1999 |
| 28a | "Spaced Out" | February 24, 1999 |
| 28b | "Nine Lives" | February 24, 1999 |
| 29a | "Dem Bones" | February 25, 1999 |
| 29b | "Winslow's Home Videos" | February 25, 1999 |
| 29c | "You're Fired" | February 25, 1999 |
| 30a | "Showdown at Hole 18" | February 26, 1999 |
| 30b | "Sneezie Dog" | February 26, 1999 |
| 31a | "It's a Wonderful Half Life" | July 26, 1999 |
| 31b | "Shepherd Dog" | July 26, 1999 |
| 32a | "Surfin' CatDog" | July 27, 1999 |
| 32b | "Guess Who's Going to Be Dinner!" | July 27, 1999 |
| 33a | "Dog Power" | July 28, 1999 |
| 33b | "It's a Jungle in Here!" | July 28, 1999 |
| 34a | "The House of CatDog" | July 29, 1999 |
| 34b | "CatDog Campers" | July 29, 1999 |
| 35a | "Let the Games Begin!" | July 30, 1999 |
| 35b | "Winslow Falls in Love" | July 30, 1999 |
| 36a | "Extra! Extra!" | November 13, 1999 |
| 36b | "CatDog Squared" | November 13, 1999 |
| 37 | "A Very CatDog Christmas" | November 30, 1999 |
| 38a | "Royal Dog" | March 9, 2000 |
| 38b | "Springtime for CatDog" | March 9, 2000 |
| 39a | "A Dog Ate My Homework" | March 9, 2000 |
| 39b | "The End" | March 9, 2000 |
| 40a | "Cliff's Little Secret" | March 16, 2000 |
| 40b | "Freak Show" | March 16, 2000 |