http://shmuplations.com/zoneofenders/
These lengthy Zone of Enders: The 2nd Runner (called Anubis in Japan) interviews were originally featured in the 1998 jp artbook Visual Works of Anubis. It features a top-down account of the development as told by director Shuyo Murata and producer Hideo Kojima.
A good deal of time is spent talking about the creative conflicts in the project between character designers Tsubasa Masao and Nobuyoshi Nishimura, and on a more abstract level, between Hideo Kojima and Shuyo Murata’s philosophy of game design.