The NCEL1 trophy was presented to the team after the final home game of the season, against Leeds Carnegie, on 18 April 2008. A game which ensured they remained unbeaten at home in the league throughout the entire season. The club also reached the 2008–09 Northern Counties East League Presidents Cup final but lost 3–2 on aggregate to Nostell Miners Welfare after drawing the away leg 1–1 and losing the home leg 2–1. The 2008–09 season also saw Scarborough Athletic enter the FA Vase for the first time. They reached the 4th round, the furthest they would ever reach in the competition, before losing at Bideford.