大塚製薬
After retirement, Nakata started coaching career at Otsuka Pharmaceutical (later "Tokushima Vortis"). He coached at Otsuka Pharmaceutical (1993-1995), Yokohama F. Marinos (1996-1999), Cerezo Osaka (2000-2003) and Nagoya Grampus Eight (2004-2007). In 2005, he also managed Nagoya Grampus Eight from September to December. In 2008, he moved to Tokushima Vortis and became Technical Advisor until October 2014. In 2015, he moved to Yokohama FC and became Technical Director. In September 2015, manager Miloš Rus resigned for health reasons. Nakata became a manager and managed 11 matches until end of the season. In 2016 season, although Rus returned to manager, Rus resigned for heart arrhythmia in June. So, Nakata became a manager again. In October 2017, he was sacked for poor performance.