Murphy started his career in the youth academy of Livingston but was released in 2014 by then Livi manager John McGlynn.
[1] He signed for Leith Athletic following his release from Livi and was part of the side that won the King Cup in 2015–2016.
[4] He made his debut for the Wee Gers in a 4–0 Scottish League Cup defeat against Annan on 17 July 2018.
[5] Murphy signed for Tranent Juniors in 2019 and went on to be part of the season to win the 2021–22 East of Scotland Football League.
[6][7] On 6 May 2024, Sean announced he was leaving Tranent Juniors after 5 seasons with the newly lowland club and he was moving onto joining Bonnyrigg Rose on a pre-contract.