| 1. | Pokémon Crystal | 600,655 | 4.75% | 41 | 1:00:27:56 |
| 2. | Pokémon Emerald | 408,131 | 3.23% | 50 | 2:00:34:55 |
| 3. | Pokémon Red and Blue | 404,624 | 3.20% | 47 | 2:13:54:19 |
| 4. | Dragon Ball: Advanced Adventure | 382,889 | 3.03% | 12 | 9:29:48 |
| 5. | Super Metroid | 329,119 | 2.60% | 32 | 4:02:54:30 |
| 6. | Mega Man X2 | 313,531 | 2.48% | 13 | 23:57:33 |
| 7. | Mega Man X6 | 284,646 | 2.25% | 26 | 1:17:53:54 |
| 8. | Dragon Ball Z | 248,630 | 1.97% | 25 | 23:45:31 |
| 9. | Diablo II | 246,705 | 1.95% | 37 | 2:14:12:51 |
| 10. | The Legend of Zelda: Ocarina of Time | 205,304 | 1.62% | 21 | 5:01:10:56 |
| 11. | Mega Man X | 177,116 | 1.40% | 36 | 3:16:53:15 |
| 12. | Pokémon FireRed and LeafGreen | 170,988 | 1.35% | 42 | 2:17:15:02 |
| 13. | Dragon Ball Z: The Legacy of Goku II | 163,206 | 1.29% | 13 | 6:29:59 |
| 14. | Mega Man 7 | 158,777 | 1.26% | 21 | 1:09:18:25 |
| 15. | Chroma Squad | 157,212 | 1.24% | 34 | 14:07:55 |
| 16. | Mega Man X5 | 138,561 | 1.10% | 15 | 1:01:24:02 |
| 17. | Super Mario Bros. 3 | 131,011 | 1.04% | 12 | 11:16:59 |
| 18. | Metroid Fusion | 129,266 | 1.02% | 7 | 1:08:09:34 |
| 19. | Mega Man X3 | 122,717 | 0.97% | 18 | 1:06:52:22 |
| 20. | Sonic the Hedgehog 3 | 119,122 | 0.94% | 3 | 10:48:24 |
| 21. | Castlevania: Symphony of the Night | 118,418 | 0.94% | 18 | 2:02:35:53 |
| 22. | The Legend of Zelda: A Link to the Past | 109,983 | 0.87% | 10 | 2:02:13:03 |
| 23. | Shovel Knight | 106,365 | 0.84% | 29 | 1:00:32:52 |
| 24. | Marvel Super Heroes | 103,407 | 0.82% | 8 | 15:45:20 |
| 25. | Tony Hawk's Pro Skater 2 | 102,577 | 0.81% | 8 | 7:41:59 |
| 26. | Pokémon Platinum | 102,250 | 0.81% | 43 | 1:05:01:55 |
| 27. | Alien 3 | 96,327 | 0.76% | 3 | 5:21:25 |
| 28. | Mega Man Battle Network | 91,477 | 0.72% | 19 | 10:00:59 |
| 29. | Mega Man X: Command Mission | 89,127 | 0.70% | 21 | 9:30:14 |
| 30. | Metroid: Zero Mission | 84,857 | 0.67% | 3 | 10:04:44 |
| 31. | Metroid Dread | 83,270 | 0.66% | 1 | 3:22:05 |
| 32. | Super Mario RPG | 79,402 | 0.63% | 13 | 1:11:29:01 |
| 33. | Mega Man | 77,494 | 0.61% | 13 | 22:04:49 |
| 34. | Final Fight 3 | 76,650 | 0.61% | 7 | 5:14:03 |
| 35. | Chrono Trigger | 76,633 | 0.61% | 15 | 2:12:42:40 |
| 36. | Mega Man 9 | 71,658 | 0.57% | 6 | 3:58:15 |
| 37. | Chakan: The Forever Man | 67,590 | 0.53% | 23 | 2:20:19:37 |
| 38. | The Legend of Zelda | 66,438 | 0.53% | 35 | 11:45:22 |
| 39. | Mega Man X4 | 65,819 | 0.52% | 5 | 12:02:34 |
| 40. | Donkey Kong Country | 63,759 | 0.50% | 3 | 7:37:29 |
| 41. | Resident Evil | 63,664 | 0.50% | 8 | 1:09:44:09 |
| 42. | Super Mario 64 | 63,647 | 0.50% | 3 | 8:56:25 |
| 43. | The Revenge of Shinobi | 63,549 | 0.50% | 5 | 6:20:43 |
| 44. | Resident Evil 2 | 61,207 | 0.48% | 6 | 20:19:37 |
| 45. | Pokémon Ruby and Sapphire | 59,236 | 0.47% | 3 | 8:50:53 |
| 46. | Mega Man 3 | 55,044 | 0.44% | 7 | 3:32:59 |
| 47. | Super Mario Bros. | 54,886 | 0.43% | 5 | 5:40:13 |
| 48. | Mega Man 8 | 53,486 | 0.42% | 3 | 5:45:41 |
| 49. | Super Mario World | 49,827 | 0.39% | 14 | 1:09:20:34 |
| 50. | Saint Seiya: Ougon Densetsu | 49,705 | 0.39% | 1 | 1:45:18 |
| 51. | Pokémon Gold and Silver | 49,179 | 0.39% | 2 | 7:46:14 |
| 52. | Demon's Crest | 48,788 | 0.39% | 6 | 19:02:57 |
| 53. | ActRaiser | 48,520 | 0.38% | 12 | 15:29:04 |
| 54. | Blackthorne | 48,430 | 0.38% | 6 | 13:27:59 |
| 55. | Super Mario World 2: Yoshi's Island | 48,165 | 0.38% | 13 | 1:03:07:33 |
| 56. | Disney's Aladdin | 45,896 | 0.36% | 4 | 2:13:54 |
| 57. | Dragon Ball Z: The Legacy of Goku | 45,790 | 0.36% | 1 | 36:58 |
| 58. | Diablo | 45,456 | 0.36% | 1 | 6:44:57 |
| 59. | Donkey Kong Country 2 | 44,881 | 0.35% | 15 | 12:57:17 |
| 60. | Mega Man 4 | 44,560 | 0.35% | 7 | 4:21:32 |
| 61. | Mega Man 2 | 44,272 | 0.35% | 6 | 2:25:51 |
| 62. | Dragon Ball Z: Idainaru Dragon Ball Densetsu | 42,671 | 0.34% | 1 | 1:05:02 |
| 63. | Spider-Man and Venom: Maximum Carnage | 41,817 | 0.33% | 12 | 1:03:05:47 |
| 64. | Todd McFarlane's Spawn: The Video Game | 40,901 | 0.32% | 2 | 3:14:11 |
| 65. | The Messenger | 40,707 | 0.32% | 15 | 2:09:41:27 |
| 66. | Dino Crisis | 40,638 | 0.32% | 1 | 3:41:34 |
| 67. | Mighty No. 9 | 39,833 | 0.31% | 10 | 10:18:41 |
| 68. | Dino Crisis 2 | 38,587 | 0.31% | 5 | 8:08:02 |
| 69. | Goof Troop | 38,121 | 0.30% | 3 | 3:49:03 |
| 70. | The Batman | 36,988 | 0.29% | 2 | 1:01:51 |
| 71. | Saint Seiya: The Sanctuary | 36,458 | 0.29% | 1 | 2:26:45 |
| 72. | Mega Man 5 | 36,119 | 0.29% | 5 | 2:56:12 |
| 73. | Fire Emblem | 35,934 | 0.28% | 10 | 7:31:56 |
| 74. | Mega Man 11 | 35,709 | 0.28% | 5 | 9:21:52 |
| 75. | Souldiers | 35,354 | 0.28% | 1 | 14:03:07 |
| 76. | Sonic the Hedgehog | 33,958 | 0.27% | 8 | 10:15:09 |
| 77. | Mega Man Maker | 33,939 | 0.27% | 10 | 1:03:16:10 |
| 78. | The Legend of Zelda: Link's Awakening | 33,507 | 0.26% | 6 | 1:01:31:23 |
| 79. | Disney's Magical Quest 3 starring Mickey and Donald | 33,332 | 0.26% | 1 | 51:36 |
| 80. | Pokémon Yellow | 32,824 | 0.26% | 5 | 19:11:41 |
| 81. | Super Bomberman 3 | 31,727 | 0.25% | 5 | 3:27:44 |
| 82. | Super Bomberman 4 | 31,577 | 0.25% | 4 | 2:55:51 |
| 83. | Mega Man 10 | 31,229 | 0.25% | 8 | 4:49:31 |
| 84. | Mega Man 6 | 30,889 | 0.24% | 5 | 2:52:39 |
| 85. | The Legend of Zelda: The Minish Cap | 30,423 | 0.24% | 9 | 1:19:11:15 |
| 86. | Dragon Ball Z 2: Super Battle | 30,009 | 0.24% | 1 | 1:01:03 |
| 87. | GoldenEye 007 | 28,954 | 0.23% | 1 | 2:42:13 |
| 88. | Mega Man: The Wily Wars | 27,825 | 0.22% | 1 | 3:17:17 |
| 89. | Mario Kart 64 | 27,566 | 0.22% | 3 | 5:34:53 |
| 90. | Pokémon Brilliant Diamond and Shining Pearl | 27,297 | 0.22% | 1 | 9:59:14 |
| 91. | Battletoads | 26,498 | 0.21% | 10 | 20:38:09 |
| 92. | Scooby-Doo Mystery | 26,349 | 0.21% | 2 | 1:37:01 |
| 93. | Alex Kidd in Miracle World | 25,705 | 0.20% | 5 | 3:50:59 |
| 94. | Breath of Fire IV | 24,329 | 0.19% | 18 | 9:07:20 |
| 95. | Syphon Filter | 24,174 | 0.19% | 8 | 22:17:27 |
| 96. | The Legend of Zelda: Majora's Mask | 23,805 | 0.19% | 9 | 1:23:05:31 |
| 97. | Naruto: Ninja Council | 23,780 | 0.19% | 1 | 30:25 |
| 98. | Mega Man Zero | 23,569 | 0.19% | 2 | 4:50:05 |
| 99. | The King of Dragons | 22,575 | 0.18% | 4 | 5:25:40 |
| 100. | Clock Tower | 22,294 | 0.18% | 2 | 3:30:00 |
