After being rejected by the Athenian League, Bracknell joined Division Two South of the Isthmian League in 1984. They finished as runners-up in 1985–86 and were promoted to Division One. However, they were relegated back to Division Two South at the end of the 1988–89 season. League reorganisation saw them placed in Division Three in 1991, but after winning the division in 1993–94, they were promoted to Division Two, where they remained until relegation back to Division Three at the end of the 1988–89 season. In 2000–01 the club reached the first round of the FA Cup for the first time, eventually losing 4–0 at Lincoln City.