橫須賀鎮守府
After the war, Fujii served briefly as chief of staff of the Yokosuka Naval District and the IJN 1st Fleet and director of the Sasebo Naval Arsenal. He was promoted to vice admiral on 1 December 1909 and became Vice-Chief of the Imperial Japanese Navy General Staff. In 1913, he was Commander-in-Chief of the Sasebo Naval District, and in 1915, was commander in chief of the IJN 1st Fleet and the Yokosuka Naval District. He was promoted to full admiral on 1 December 1916, becoming a naval councilor. He went into the reserves in 1920.