| 1. | Mystical Ninja Starring Goemon | 108,445 | 2.82% | 3 | 11:00 |
| 2. | Final Fantasy VIII | 69,324 | 1.80% | 7 | 31:58 |
| 3. | Super Smash Bros. Brawl | 23,926 | 0.62% | 11 | 25:32 |
| 4. | Earthworm Jim 2 | 23,438 | 0.61% | 3 | 10:21 |
| 5. | Super Mario 64 DS | 19,279 | 0.50% | 1 | 2:48 |
| 6. | Splinter Cell: Chaos Theory | 17,401 | 0.45% | 14 | 5:07:15 |
| 7. | Super Mario World 2: Yoshi's Island | 15,254 | 0.40% | 2 | 6:49 |
| 8. | Final Fantasy IX | 13,178 | 0.34% | 8 | 22:46 |
| 9. | Wave Race 64 | 6,135 | 0.16% | 1 | 12:59 |
| 10. | Star Fox: Assault | 4,374 | 0.11% | 3 | 32:45 |
| 11. | ActRaiser | 3,520 | 0.09% | 1 | 3:07 |
| 12. | Splinter Cell | 3,504 | 0.09% | 13 | 4:53:29 |
| 13. | Streets of Rage 2 | 3,329 | 0.09% | 3 | 20:30 |
| 14. | Final Fantasy VI | 3,145 | 0.08% | 5 | 32:13 |
| 15. | Super Mario Bros. | 3,047 | 0.08% | 2 | 13:53 |
| 16. | Chrono Trigger | 2,753 | 0.07% | 12 | 1:09:08 |
| 17. | F-Zero GX | 2,613 | 0.07% | 1 | 1:31 |
| 18. | Hybrid Heaven | 2,525 | 0.07% | 3 | 12:14 |
| 19. | RetroArch | 2,472 | 0.06% | 1 | 3:27 |
| 20. | Ogre Battle 64: Person of Lordly Caliber | 2,169 | 0.06% | 1 | 4:38 |
| 21. | Killer Instinct Gold | 1,770 | 0.05% | 1 | 1:10 |
| 22. | The Legend of Zelda: A Link to the Past | 1,515 | 0.04% | 3 | 25:10 |
| 23. | Grandia III | 1,370 | 0.04% | 3 | 15:46 |
| 24. | Kirby 64: The Crystal Shards | 1,303 | 0.03% | 1 | 1:39 |
| 25. | Dragon Quest VI: Realms of Revelation | 1,167 | 0.03% | 1 | 5:16 |
| 26. | Super Mario 64 | 1,019 | 0.03% | 4 | 20:16 |
| 27. | Dragon Quest V: Hand of the Heavenly Bride | 1,006 | 0.03% | 1 | 2:45 |
| 28. | Banjo-Tooie | 1,004 | 0.03% | 1 | 1:14 |
| 29. | Contra | 982 | 0.03% | 2 | 7:40 |
| 30. | Star Fox Adventures | 981 | 0.03% | 1 | 1:28 |
| 31. | Donkey Kong 64 | 963 | 0.03% | 3 | 19:56 |
| 32. | Star Ocean: Till the End of Time | 938 | 0.02% | 2 | 14:04 |
| 33. | Super Smash Bros. Ultimate | 872 | 0.02% | 1 | 3:10 |
| 34. | Goemon's Great Adventure | 859 | 0.02% | 3 | 6:16 |
| 35. | GoldenEye 007 | 823 | 0.02% | 1 | 5:17 |
| 36. | Final Fantasy X | 823 | 0.02% | 4 | 16:58 |
| 37. | Super Mario Bros. 3 | 787 | 0.02% | 1 | 6:08 |
| 38. | Mega Man X3 | 724 | 0.02% | 2 | 8:25 |
| 39. | Grandia | 722 | 0.02% | 2 | 7:54 |
| 40. | Mega Man 2 | 692 | 0.02% | 1 | 1:22 |
| 41. | Sparkster | 671 | 0.02% | 5 | 21:34 |
| 42. | Final Fantasy III | 625 | 0.02% | 2 | 14:37 |
| 43. | Final Fantasy IV | 615 | 0.02% | 1 | 3:34 |
| 44. | The Legend of Zelda: Majora's Mask | 560 | 0.01% | 1 | 10:23 |
| 45. | Super Mario All-Stars | 546 | 0.01% | 2 | 7:57 |
| 46. | Pilotwings 64 | 533 | 0.01% | 2 | 12:25 |
| 47. | Donkey Kong Country | 522 | 0.01% | 2 | 9:14 |
| 48. | Mario Kart 64 | 509 | 0.01% | 1 | 13:34 |
| 49. | Sonic Generations | 506 | 0.01% | 7 | 20:48 |
| 50. | Alien Soldier | 493 | 0.01% | 2 | 4:57 |
| 51. | Star Fox | 484 | 0.01% | 2 | 9:56 |
| 52. | Splinter Cell: Pandora Tomorrow | 456 | 0.01% | 5 | 1:54:37 |
| 53. | Earthworm Jim | 426 | 0.01% | 2 | 5:09 |
| 54. | Mega Man X2 | 425 | 0.01% | 2 | 4:59 |
| 55. | Zelda II: The Adventure of Link | 422 | 0.01% | 1 | 2:26 |
| 56. | Dr. Mario 64 | 411 | 0.01% | 1 | 3:43 |
| 57. | Contra III: The Alien Wars | 395 | 0.01% | 3 | 32:25 |
| 58. | Burnout 2: Point of Impact | 359 | 0.01% | 1 | 5:12 |
| 59. | Kirby Super Star | 353 | 0.01% | 2 | 32:18 |
| 60. | Super Mario World | 338 | 0.01% | 2 | 1:49 |
| 61. | Lagrange Point | 333 | 0.01% | 1 | 3:42 |
| 62. | Final Fantasy VII | 305 | 0.01% | 4 | 17:24 |
| 63. | Mario Golf | 304 | 0.01% | 1 | 2:09 |
| 64. | Crash Bandicoot: Warped | 293 | 0.01% | 1 | 3:27 |
| 65. | Grandia II | 276 | 0.01% | 2 | 8:35 |
| 66. | Sonic the Hedgehog 2 | 258 | 0.01% | 2 | 5:39 |
| 67. | Bomberman 64: The Second Attack! | 244 | 0.01% | 1 | 1:49 |
| 68. | Teenage Mutant Ninja Turtles IV: Turtles in Time | 243 | 0.01% | 1 | 2:48 |
| 69. | Secret of Mana | 232 | 0.01% | 1 | 9:09 |
| 70. | Teenage Mutant Ninja Turtles: Tournament Fighters | 224 | 0.01% | 1 | 3:14 |
| 71. | Mighty Morphin Power Rangers: The Movie | 220 | 0.01% | 1 | 54:15 |
| 72. | Breath of Fire II | 200 | 0.01% | 1 | 9:37 |
| 73. | Paper Mario | 193 | 0.01% | 2 | 13:17 |
| 74. | Castlevania III: Dracula's Curse | 183 | 0.00% | 1 | 4:15 |
| 75. | Splinter Cell: Conviction | 178 | 0.00% | 4 | 41:38 |
| 76. | Tales of Symphonia | 177 | 0.00% | 1 | 11:04 |
| 77. | Thunder Force III | 176 | 0.00% | 1 | 3:12 |
| 78. | Tales of Phantasia | 176 | 0.00% | 1 | 10:14 |
| 79. | Kirby's Adventure | 169 | 0.00% | 1 | 2:01 |
| 80. | Breath of Fire III | 168 | 0.00% | 3 | 51:06 |
| 81. | Grandia II Anniversary Edition | 145 | 0.00% | 1 | 6:09 |
| 82. | Mega Man X | 138 | 0.00% | 2 | 44:43 |
| 83. | Sonic the Hedgehog 3 | 129 | 0.00% | 2 | 9:46 |
| 84. | Castlevania: Bloodlines | 104 | 0.00% | 3 | 17:48 |
| 85. | Final Fantasy | 98 | 0.00% | 1 | 1:57 |
| 86. | Breath of Fire | 96 | 0.00% | 1 | 8:08 |
| 87. | Mega Man 7 | 96 | 0.00% | 1 | 5:13 |
| 88. | Star Ocean | 96 | 0.00% | 1 | 6:50 |
| 89. | Banjo-Kazooie | 89 | 0.00% | 1 | 14:31 |
| 90. | Castlevania: Rondo of Blood | 85 | 0.00% | 1 | 4:36 |
| 91. | Sonic Adventure DX: Director's Cut | 82 | 0.00% | 1 | 2:38 |
| 92. | Mega Man 5 | 75 | 0.00% | 1 | 4:58 |
| 93. | Spyro the Dragon | 59 | 0.00% | 1 | 6:45 |
| 94. | Gunstar Heroes | 54 | 0.00% | 1 | 5:01 |
| 95. | The King of Dragons | 50 | 0.00% | 1 | 4:00 |
| 96. | Donkey Kong Country 3 | 50 | 0.00% | 1 | 12:33 |
| 97. | Earthbound | 48 | 0.00% | 1 | 4:58 |
| 98. | Sonic Mania | 46 | 0.00% | 2 | 3:03 |
| 99. | Star Fox 64 | 44 | 0.00% | 1 | 5:14 |
| 100. | The Ninja Warriors | 42 | 0.00% | 1 | 8:55 |
