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The club was established in 1898. They played in Horsham & District League before joining the Crawley and District Football League. They subsequently moved up to the Mid-Sussex League, where they played until joining Division Two of the Sussex County League in 1959. The club won the Division Two Cup in 1959–60 and 1961–62 before winning the Division Two title in 1965–66, earning promotion to Division One. They went on to win the league's John O'Hara Cup in 1966–67, 1967–68 and 1981–82.

Horsham were relegated to Division Two at the end of the 1981–82 season. However, they won the Division Two title at the first attempt, earning an immediate promotion back to Division One. They were relegated again after finishing bottom of Division One in 1987–88. They won the Division Two Cup in 1994–95, also finishing third in the division to earn promotion back to Division One. The club won Sussex RUR Cup in 2000–01, and the John O'Hara Cup the following season. They won the Division One title in 2004–05, but were denied promotion due to ground grading regulations. However, after winning Division One again the following season and making improvements to their Gorings Mead ground, the club were promoted to Division One South of the Isthmian League.

The 2007–08 season saw Horsham finish in the relegation zone, resulting in relegation back to Division One of the Sussex County League. However, after finishing third in division the following season, they were promoted back to Division One South of the Isthmian League. In 2010–11 the club finished bottom of Division One South and were relegated to the Sussex County League again. In 2015 the league was renamed the Southern Combination, with Division One becoming the Premier Division.