He debuted for the club in the 1–0 home victory over Barnet on 8 August 2009 but a thigh strain picked up in training saw him miss half of the August fixtures whilst a knee injury sustained in the 3–0 home victory over Darlington on 5 September 2009 kept him on the sidelines for almost five months before returning to the first team squad for the game with Bradford City on 23 January 2010 for which he was an unused substitute. He then struggled to make the starting eleven, starting only five games in the remainder of the season and he departed Sincil Bank on 5 May 2010 with his contract cancelled by mutual consent.
Connor commenced the 2009–2010 season by training with Cheltenham Town before joining Lincoln City on trial. He agreed a one-year contract with the Sincil Bank based club on 21 July 2009.