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Jumpin said:

But (and this is me personally), I still considered the N64 to be the main platform during its time, even though GB was booming and bringing Nintendo popularity to new heights - a lot of that was the Pokemon crowd. But that's only my personal feeling about the N64. Objectively speaking, the handheld sector was bigger during the N64 era with few exceptions (mainly the Goldeneye 007 period).

For the first half, I agree. But after Pokemon and Game Boy Color revived interest in Game Boy, Nintendo spent much of the later half of N64's life trying to funnel the new Game Boy Color user base to N64. Things like Pokemon Stadium, Mario Sports, and Perfect Dark all having connectivity with the GBC versions, for example. They would go even harder on this with the GBA and GameCube gen.