After being raised on Tokyo Verdy youth ranks, Fujimoto was promoted to the top team in October 2017.[2] He debuted in a J2 League game in the opening match of the 2018 season against JEF United Chiba.[3] He scored his first goal for the club against Fagiano Okayama on 27 June 2018, scoring in the 20th minute.[4]
In May 2020, Portuguese newspaper A Bola reported advanced talks for a move to Gil Vicente for the 2020-21 season, in a one-year loan with an option to buy his contract.[5] The move was confirmed on 5 August 2020, as he signed for the Portuguese club on loan with an option for them to buy out his contract.[6] He made his debut for Gil against Santa Clara on 3 October 2020.[7] He scored his first goal for the club against Sporting CP on 9 February 2021, scoring in the 36th minute.[8]