Good question, hard to make up my mind thought.
Here are my top 5 greatest games

1. Zelda: Ocarina of Time (GC version)
2. Metroid Prime 2: Echoes
3. Mario World (GBA)
4. Zelda: Majoras Mask (N64 version)
5. Perfect Dark

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Thanks to xCloudx for the sig. Formally jimbob2720. Proud adopter of jeaulm