After the retirement, Hayashi signed with Vissel Kobe in 2018. He served as an assistant coach under manager Takayuki Yoshida in April. In September, manager Yoshida resigned for poor results. Hayashi managed 2 matches until Vissel signed with new manager Juan Manuel Lillo. In June 2019, Hayashi left Vissel. In September 2020, he signed with Vissel again and became an assistant coach.