After retirement, Nishimura started coaching career at Matsushita Electric (later "Gamba Osaka") in 1991. In 1999, he became a manager for the Japan U-20 national team. He managed U-20 Japan at the 2001 World Youth Championship in Argentina. In September 2001, he signed with Cerezo Osaka and became an assistant coach. In December, he became a manager as João Carlos successor and he led the club to won the 2nd place in 2001 Emperor's Cup. In October 2003, he was sacked. In 2004, he signed with Kyoto Purple Sanga. He was sacked in June.