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Season 1Edit

  1. Das Mouse
  2. Of Mouse and Man
  3. Tokyo Grows/That Smarts/Brainstem
  4. Pinky & the Fog/Where No Mouse Has Gone Before/Cheese Roll Call
  5. Brainania
  6. TV or Not TV
  7. Napoleon Brainaparte
  8. A Pinky and the Brain Christmas
  9. Snowball
  10. Around the World in 80 Narfs
  11. Fly
  12. Ambulatory Abe/Mouse of La Mancha
  13. The Third Mouse/The Visit

Season 2Edit

  1. It's Only a Paper World
  2. Collect 'em All/Pinkasso
  3. Plan Brain from Outer Space
  4. The Pink Candidate
  5. Brain's Song
  6. Welcome to the Jungle
  7. A Little Off the Top/Megalomaniacs Anonymous
  8. The Mummy/Robin Brain
  9. Two Mice and a Baby/The Maze
  10. Brain of the Future
  11. Brinky
  12. Hoop Schemes

Season 3Edit

  1. Leave It to Beavers/Cinebrainia
  2. Pinky & the Brain... and Larry/Where the Deer and the Mousealopes Play
  3. Brain Noir
  4. Brain's Bogie/Say What, Earth?
  5. My Feldmans, My Friends
  6. All You Need Is Narf/Pinky's Plan
  7. This Old Mouse
  8. Brain Storm
  9. A Meticulous Analysis of History/Funny, You Don't Look Rhennish
  10. The Pinky Protocol
  11. Mice Don't Dance/Brain Drained
  12. Brain Acres
  13. Pinky and the Brainmaker/Calvin Brain
  14. Pinky Suavo/T.H.E.Y.
  15. The Real Life
  16. Brain's Way
  17. A Pinky and the Brain Halloween
  18. Brainy Jack
  19. Leggo My Ego/Big in Japan
  20. But That's Not All, Folks!
  21. Operation: Sea Lion/You Said a Mouseful
  22. The Tailor and the Mice/Bah, Wilderness
  23. Pinky at the Bat/Schpiel-borg 2000
  24. Broadway Malady
  25. The Megalomaniacal Adventures of Brainie the Poo/The Melancholy Brain
  26. Inherit the Wheeze
  27. Brain's Night Off/Beach Blanket Brain
  28. The Family That Poits Together, Narfs Together
  29. Pinky's Turn/Your Friend: Global Domination
  30. You'll Never Eat Food Pellets in This Town Again!
  31. Dangerous Brains
  32. Whatever Happened to Baby Brain?/Just Say Narf
  33. The Pinky P.O.V./The Really Great Dictator/Brain Food

Season 4Edit

  1. Brainwashed: Part 1 - Brain, Brain, Go Away
  2. Brainwashed: Part 2 - I Am Not a Hat
  3. Brainwashed: Part 3 - Wash Harder
  4. To Russia with Lab Mice/Hickory Dickory Bonk
  5. The Pinky and the Brain Reunion Special
  6. A Legendary Tail/Project B.R.A.I.N.
  7. Star Warners