 Murphy later reversed his decision to retire and rejoined the county squad for training on 7 July 2009.On 23 June 2013 Murphy captained Cork for the first time due to the absence of regular skipper Pa Cronin.The 0–23 to 0–15 defeat of Clare set up a Munster decider with Limerick, however, a shoulder injury in a club game a week later which looked to have brought an end to his season.