| 1. | Advance Wars | 310,954 | 8.78% | 101 | 1:07:25:23 |
| 2. | Digimon World | 274,142 | 7.74% | 34 | 4:55:52 |
| 3. | Battalion Wars 2 | 179,850 | 5.08% | 39 | 10:46:37 |
| 4. | Fire Emblem: The Binding Blade | 166,571 | 4.70% | 43 | 1:00:33:19 |
| 5. | Phoenix Wright: Ace Attorney | 154,083 | 4.35% | 21 | 4:14:40 |
| 6. | F-Zero X | 138,731 | 3.92% | 8 | 3:07:30 |
| 7. | Advance Wars 2: Black Hole Rising | 121,886 | 3.44% | 79 | 1:07:10:47 |
| 8. | Super Mario Bros. | 100,492 | 2.84% | 6 | 1:41:21 |
| 9. | F-Zero: GP Legend | 94,358 | 2.66% | 13 | 4:15:29 |
| 10. | Mega Man Legends 2 | 88,145 | 2.49% | 44 | 11:04:50 |
| 11. | F-Zero | 83,747 | 2.36% | 11 | 3:28:14 |
| 12. | F-Zero GX | 77,980 | 2.20% | 10 | 2:34:32 |
| 13. | Yu-Gi-Oh! The Duelists of the Roses | 57,364 | 1.62% | 33 | 7:20:05 |
| 14. | Mega Man Battle Network | 56,778 | 1.60% | 13 | 1:44:24 |
| 15. | Fire Emblem Gaiden | 50,102 | 1.41% | 5 | 1:19:54 |
| 16. | Super Famicom Wars | 47,647 | 1.34% | 4 | 32:52 |
| 17. | Field Commander | 40,455 | 1.14% | 13 | 5:38:27 |
| 18. | Game Boy Wars 3 | 38,478 | 1.09% | 16 | 7:51:09 |
| 19. | Advance Wars: Dual Strike | 36,534 | 1.03% | 55 | 17:21:09 |
| 20. | Pokémon Snap | 31,949 | 0.90% | 7 | 52:12 |
| 21. | F-Zero Climax | 31,725 | 0.90% | 7 | 1:59:56 |
| 22. | F-Zero: Maximum Velocity | 29,632 | 0.84% | 5 | 1:14:39 |
| 23. | Battalion Wars | 27,862 | 0.79% | 19 | 5:37:03 |
| 24. | Fire Emblem: The Sacred Stones | 27,560 | 0.78% | 48 | 3:01:16:13 |
| 25. | The Legend of Zelda | 25,127 | 0.71% | 3 | 1:26:07 |
| 26. | Puyo Puyo 2 | 25,088 | 0.71% | 3 | 27:25 |
| 27. | Game Boy Wars | 23,416 | 0.66% | 5 | 43:34 |
| 28. | Mega Man Network Transmission | 23,126 | 0.65% | 29 | 4:01:14 |
| 29. | Super Mario War | 23,121 | 0.65% | 1 | 9:50 |
| 30. | Mega Man X6 | 21,733 | 0.61% | 13 | 4:38:02 |
| 31. | Mega Man Battle Network 4 | 18,924 | 0.53% | 15 | 9:07:27 |
| 32. | New Super Mario Bros. | 18,180 | 0.51% | 1 | 2:16 |
| 33. | BS Zelda no Densetsu: Inishie no Sekiban | 17,578 | 0.50% | 7 | 3:34:28 |
| 34. | Advance Wars: Days of Ruin | 15,554 | 0.44% | 25 | 16:04:30 |
| 35. | Fire Emblem: Genealogy of the Holy War | 14,372 | 0.41% | 28 | 19:10 |
| 36. | The Elder Scrolls II: Daggerfall | 12,639 | 0.36% | 20 | 10:08:10 |
| 37. | Apollo Justice: Ace Attorney | 12,125 | 0.34% | 4 | 1:58:36 |
| 38. | Pac-Man World | 11,313 | 0.32% | 1 | 4:33 |
| 39. | F-Zero AX | 10,755 | 0.30% | 1 | 25:46 |
| 40. | Harry Potter and the Philosopher's Stone | 10,621 | 0.30% | 31 | 5:02:41 |
| 41. | Yu-Gi-Oh! Capsule Monster Coliseum | 10,434 | 0.29% | 5 | 3:43:56 |
| 42. | Sonic Advance | 10,147 | 0.29% | 1 | 8:36 |
| 43. | Super Smash Bros. Brawl | 9,925 | 0.28% | 19 | 1:28:13 |
| 44. | The Legend of Zelda: Ocarina of Time | 9,714 | 0.27% | 58 | 21:12:10 |
| 45. | Yu-Gi-Oh! Reshef of Destruction | 9,660 | 0.27% | 1 | 2:33 |
| 46. | Yu-Gi-Oh! The Sacred Cards | 8,598 | 0.24% | 14 | 3:50:50 |
| 47. | Mario Bros. | 7,816 | 0.22% | 1 | 9:59 |
| 48. | The Legend of Zelda: Link's Awakening | 7,362 | 0.21% | 7 | 3:37:36 |
| 49. | The Great Ace Attorney: Adventures | 7,147 | 0.20% | 9 | 1:54:43 |
| 50. | Final Fantasy XI | 6,533 | 0.18% | 11 | 1:11:08 |
| 51. | Kirby's Dream Course | 6,352 | 0.18% | 13 | 3:44:59 |
| 52. | Super Mario World | 6,335 | 0.18% | 6 | 8:52 |
| 53. | Dr. Mario Online Rx | 6,328 | 0.18% | 1 | 4:36 |
| 54. | The Elder Scrolls: Arena | 5,967 | 0.17% | 10 | 5:01:34 |
| 55. | Final Fantasy VIII | 5,940 | 0.17% | 2 | 21:52 |
| 56. | High Score | 5,826 | 0.16% | 1 | 8:26 |
| 57. | The Elder Scrolls IV: Oblivion | 5,765 | 0.16% | 6 | 20:57 |
| 58. | Special Tee Shot | 5,732 | 0.16% | 9 | 1:50:52 |
| 59. | The Legend of Zelda: A Link to the Past | 5,664 | 0.16% | 13 | 4:22:30 |
| 60. | Final Fantasy X | 5,369 | 0.15% | 13 | 1:27:50 |
| 61. | Hoshi Wo Miru Hito | 5,245 | 0.15% | 1 | 18:49 |
| 62. | Castlevania | 4,770 | 0.13% | 3 | 43:01 |
| 63. | Tetris: The Grand Master | 4,667 | 0.13% | 10 | 4:00:42 |
| 64. | Yu-Gi-Oh! True Duel Monsters: Sealed Memories | 4,391 | 0.12% | 1 | 3:07 |
| 65. | Mega Man | 4,341 | 0.12% | 5 | 1:12:47 |
| 66. | Surf's Up | 4,238 | 0.12% | 1 | 3:01 |
| 67. | Final Fantasy | 4,238 | 0.12% | 2 | 11:55 |
| 68. | SRPG Studio | 4,209 | 0.12% | 2 | 36:50 |
| 69. | Soulcalibur III | 4,143 | 0.12% | 2 | 12:26 |
| 70. | Mega Man Legends | 4,089 | 0.12% | 19 | 6:32:46 |
| 71. | Phoenix Wright: Ace Attorney - Trials and Tribulations | 3,843 | 0.11% | 2 | 57:02 |
| 72. | New Super Mario Bros. Wii | 3,826 | 0.11% | 1 | 3:51 |
| 73. | Super Smash Bros. Melee | 3,774 | 0.11% | 2 | 15:49 |
| 74. | The Embodiment of Scarlet Devil | 3,620 | 0.10% | 6 | 47:36 |
| 75. | Mega Man Battle Network 2 | 3,534 | 0.10% | 5 | 36:37 |
| 76. | RPG Maker 2003 | 3,516 | 0.10% | 1 | 12:28 |
| 77. | Mega Man 9 | 3,499 | 0.10% | 1 | 4:13 |
| 78. | RPG Maker XP | 3,297 | 0.09% | 2 | 41:15 |
| 79. | Pokémon Red and Blue | 3,071 | 0.09% | 10 | 5:11:14 |
| 80. | Tetris | 2,958 | 0.08% | 5 | 15:59 |
| 81. | Tetris Attack | 2,908 | 0.08% | 2 | 21:03 |
| 82. | Yu-Gi-Oh! Master Duel | 2,891 | 0.08% | 1 | 2:00 |
| 83. | Yu-Gi-Oh! Ultimate Masters: World Championship Tournament 2006 | 2,890 | 0.08% | 1 | 4:34 |
| 84. | Super Paper Mario | 2,847 | 0.08% | 1 | 3:24 |
| 85. | Toy Story | 2,827 | 0.08% | 1 | 9:57 |
| 86. | Mega Man 2 | 2,477 | 0.07% | 5 | 2:12:32 |
| 87. | Mega Man X: Command Mission | 2,416 | 0.07% | 1 | 6:20 |
| 88. | Fire Emblem | 2,285 | 0.06% | 12 | 1:04:16:31 |
| 89. | Pokémon Gold and Silver | 2,269 | 0.06% | 12 | 6:49:52 |
| 90. | Digimon Rumble Arena | 2,263 | 0.06% | 2 | 20:43 |
| 91. | Harry Potter and the Chamber of Secrets | 2,211 | 0.06% | 6 | 1:02:13 |
| 92. | GUTS | 2,125 | 0.06% | 1 | 1:26 |
| 93. | Mega Man 4 | 2,122 | 0.06% | 2 | 1:16:49 |
| 94. | Line Rider | 2,097 | 0.06% | 4 | 11:36 |
| 95. | Castlevania: Harmony of Despair | 2,040 | 0.06% | 2 | 18:31 |
| 96. | Super Smash Bros. Ultimate | 1,994 | 0.06% | 2 | 12:00 |
| 97. | Fire Emblem: Shadow Dragon and the Blade of Light | 1,749 | 0.05% | 1 | 3:30 |
| 98. | Mega Man Battle Network 3 | 1,585 | 0.04% | 4 | 4:26:41 |
| 99. | GoldenEye 007 | 1,537 | 0.04% | 1 | 9:51 |
| 100. | Puyo Pop Fever | 1,503 | 0.04% | 1 | 7:06 |
