Indies Zero may not be a huge name, but you may know them from games like Mega Man Zero, Mega Man 9 and Theatrhythm: Final Fantasy, just to name a few. Did you know that the company's birth is actually tied to Nintendo? That information comes from the most recent Iwata Asks feature.
In that interview, Indies Zero is described as "a game production company that was created in 1997, and focused around members of a human resources development project that was set up by Nintendo and Dentsu." That was most likely the Nintendo Game Seminar event, which is what hosted Indies Zero's first game, Sutte Hakkun.
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