Season 1 (65 episodes)
- 1. Episode 1 Exodus
- 2. Episode 2 The Unholy Alliance
- 3. Episode 3 Berbils
- 4. Episode 4 The Slaves of Castle Plun-darr
- 5. Episode 5 Pumm-Ra
- 6. Episode 6 The Terror of Hammerhand
- 7. Episode 7 Trouble with Time
- 8. Episode 8 The Tower of Traps
- 9. Episode 9 The Garden of Delights
- 10. Episode 10 Mandora: the Evil Chaser
- 11. Episode 11 The Ghost Warrior
- 12. Episode 12 The Doomgaze
- 13. Episode 13 Lord of the Snows
- 14. Episode 14 The Spaceship Beneath the Sands
- 15. Episode 15 The Time Capsule
- 16. Episode 16 The Fireballs of Plun-Darr
- 17. Episode 17 All That Glitters
- 18. Episode 18 Spitting Image
- 19. Episode 19 Mongor
- 20. Episode 20 Return to Thundera
- 21. Episode 21 Dr. Dometone
- 22. Episode 22 The Astral Prison
- 23. Episode 23 The Crystal Queen
- 24. Episode 24 Safari Joe
- 25. Episode 25 Snarf Takes Up the Challenge
- 26. Episode 26 Sixth Sense
- 27. Episode 27 The Thunder-Cutter
- 28. Episode 28 The Wolfrat
- 29. Episode 29 Feliner (1)
- 30. Episode 30 Feliner (2)
- 31. Episode 31 Mandora and the Pirates
- 32. Episode 32 Return of the Driller
- 33. Episode 33 Dimension Doom
- 34. Episode 34 Queen of 8 Legs
- 35. Episode 35 Sword in a Hole
- 36. Episode 36 The Evil Harp of Charr-Nin
- 37. Episode 37 Lion-O's Anointment First Day: Trial of Strength
- 38. Episode 38 The Demolisher
- 39. Episode 39 Monkian's Bargain
- 40. Episode 40 Tight Squeeze
- 41. Episode 41 The Micrits
- 42. Episode 42 Lion-O's Anointment Second Day: The Trial of Speed
- 43. Episode 43 The Rock Giant
- 44. Episode 44 Jackalman's Rebellion
- 45. Episode 45 Turmagar the Tuska
- 46. Episode 46 Lion-O's Anointment Third Day: Trial of Cunning
- 47. Episode 47 The Mumm-Ra Berbil
- 48. Episode 48 Mechanical Plague
- 49. Episode 49 Trapped
- 50. Episode 50 Lion-O's Anointment Fourth Day: The Trial of Mind Power
- 51. Episode 51 Excalibur
- 52. Episode 52 Secret of the Ice King
- 53. Episode 53 Good and Ugly
- 54. Episode 54 The Transfer
- 55. Episode 55 Divide and Conquer
- 56. Episode 56 Dream Master
- 57. Episode 57 Out of Sight
- 58. Episode 58 The Mountain
- 59. Episode 59 The Superpower Potion
- 60. Episode 60 Eye of the Beholder
- 61. Episode 61 Lion-O's Anointment Final Day: The Trial of Evil
- 62. Episode 62 The Trouble with ThunderKittens
- 63. Episode 63 Mumm-Rana
- 64. Episode 64 The Shifter
- 65. Episode 65 Fond Memories
Season 2 (65 episodes)
- 1. Episode 1 ThunderCats Ho! (1)
- 2. Episode 2 ThunderCats Ho! (2)
- 3. Episode 3 ThunderCats Ho! (3)
- 4. Episode 4 ThunderCats Ho! (4)
- 5. Episode 5 ThunderCats Ho! (5)
- 6. Episode 6 Mumm-Ra Lives (1)
- 7. Episode 7 Mumm-Ra Lives (2)
- 8. Episode 8 Mumm-Ra Lives (3)
- 9. Episode 9 Mumm-Ra Lives (4)
- 10. Episode 10 Mumm-Ra Lives (5)
- 11. Episode 11 Catfight
- 12. Episode 12 Psych Out
- 13. Episode 13 The Mask of Gorgon
- 14. Episode 14 The Mad Bubbler
- 15. Episode 15 Together We Stand
- 16. Episode 16 Ravage Island
- 17. Episode 17 Time Switch
- 18. Episode 18 The Sound Stones
- 19. Episode 19 Day of the Eclipse
- 20. Episode 20 Sideswipe
- 21. Episode 21 Mumm-Rana's Belt
- 22. Episode 22 Hachiman's Honor
- 23. Episode 23 Runaways
- 24. Episode 24 Hair of the Dog
- 25. Episode 25 Vultureman's Revenge
- 26. Episode 26 ThunderCubs (1)
- 27. Episode 27 ThunderCubs (2)
- 28. Episode 28 ThunderCubs (3)
- 29. Episode 29 ThunderCubs (4)
- 30. Episode 30 ThunderCubs (5)
- 31. Episode 31 Totem of Dera
- 32. Episode 32 Chain of Loyalty
- 33. Episode 33 Crystal Canyon
- 34. Episode 34 The Telepathy Beam
- 35. Episode 35 Exile Isle
- 36. Episode 36 Key to Thundera
- 37. Episode 37 Return of the ThunderCubs
- 38. Episode 38 The Formula
- 39. Episode 39 Locket of Lies
- 40. Episode 40 Bracelet of Power
- 41. Episode 41 The Wild Workout
- 42. Episode 42 The Thunderscope
- 43. Episode 43 The Jade Dragon
- 44. Episode 44 The Circus Train
- 45. Episode 45 The Last Day
- 46. Episode 46 Return to Thundera (1)
- 47. Episode 47 Return to Thundera (2)
- 48. Episode 48 Return to Thundera (3)
- 49. Episode 49 Return to Thundera (4)
- 50. Episode 50 Return to Thundera (5)
- 51. Episode 51 Leah
- 52. Episode 52 Frogman
- 53. Episode 53 The Heritage
- 54. Episode 54 Screwloose
- 55. Episode 55 Malcar
- 56. Episode 56 Helpless Laughter
- 57. Episode 57 Cracker's Revenge
- 58. Episode 58 The Mossland Monster
- 59. Episode 59 Ma-Mutt's Confusion
- 60. Episode 60 Shadowmaster
- 61. Episode 61 Swan Song
- 62. Episode 62 Touch of Amortus
- 63. Episode 63 The Zaxx Factor
- 64. Episode 64 Well of Doubt
- 65. Episode 65 The Book of Omens
