Duffy was awarded manager of the month in League Two for October 2013 after an unbeaten month with Clyde in the league and Scottish Cup,League 2 Manager of the Month spfl.co.uk. 15-11-2013. Retrieved 22-12-2013. The team stretched that unbeaten run to ten games between October and December,Clyde FC results 2013-14 Clyde FC. Retrieved 08-05-2015. but a 3–1 home defeat to Peterhead on 7 December ended that run.Clyde 1–3 Peterhead Clyde FC. 07-12-2013. Retrieved 16-04-2014. They secured a League Two play-off spot in the penultimate league match of the season with a 4–0 home defeat of Albion Rovers,Clyde 4–0 Albion Rovers Clyde FC. 26-04-2014. Retrieved 08-05-2015. but were beaten by East Fife after a penalty shootout in the semi-finals.East Fife 2–1 Clyde (2–2 agg; East Fife win 7–6 on pens BBC Sport. 10-05-2014. Retrieved 08-05-2015. Soon afterwards, Duffy resigned as manager of Clyde to take a similar position at Morton.
