Career
In his senior career he played for Greenock Morton, Dumbarton and later Stenhousemuir, before going into Junior football with Linlithgow Rose. On 30 July 2011, Flannery played for Camelon Juniors in a preseason game against his former club Linlithgow. Whilst at Greenock Morton he was farmed out to Beith Juniors for half a season.
At Dumbarton, he went on to establish himself as one of the club"s top all-time scorers.
In November 2012, he signed for junior side Rutherglen Glencairn. On 2 May 2014, Paddy Flannery and John Doyle become co-managers at Cambuslang Rangers On 25 July 2015, Paddy became manager of local amateur football team Ardrossan Castle Rovers.