Damn where do I begin
Perfect Dark 64 (amazing replay value, solid story, incredible sountrack)
Pokemon Platinum (the most complete Pokemon game overall)
Resident Evil 3 (Playing it in hard mode is the scariest thing ever)
Resident Evil Code Veronica (LEGEND Alexia Ashford ugh)
Legend Of Zelda: Majora's Mask (dat darkness)
Castlevania Circe of the Moon (dat soundtrack
)
Many of the Pokemon and Metroidvania games figure on my list too but they have some flaws that keep them a bit down (like Heart Gold and Soul Silver's flop pokemon selection
, otherwise a flawless game)