Back in domestic action on 17 August 2009, Murphy scored and saved twice in a penalty shoot-out against Dundalk in the fourth round of the FAI Cup to help Bohemians through to the next round. He then added to his collection of medals in September as "Bohs" beat Waterford United in the final of the League of Ireland Cup. And he wasn't done yet as a great run of form towards the end of the season helped Murphy and Bohs to their second League of Ireland Premier Division title in a row, winning by 4 points from closest rivals Shamrock Rovers.