He made his first team debut on 22 August 2000 as United beat Lincoln City 6–1 in a first round first leg League Cup tie,[4] Thompson replacing David Kelly as a 73rd-minute substitute.

In March 2003 he joined Doncaster Rovers on loan until the end of the season,[11] but played just once in the Conference National for them, in a 1–1 draw at home to Morecambe.

[22] In November 2006 he accused Northwich Victoria captain Stuart Elliott of racial abuse and an official complaint was lodged with The Football Association.

[25] Thompson was a first team regular but, despite the offer of new contract at Halifax, he failed to make contact with the West Yorkshire club and became a free agent at the end of the 2006–07 season.

[31] His Torquay debut came on the opening day of the season, a 1–1 draw at home to Histon,[32] and he quickly became a regular in Paul Buckle's side.

[36] Following 3 games and 1 goal for The Mariners he was released from his short-term deal on 30 August 2011 with Grimsby stating that he had only been cover for the injured Anthony Church.

Thompson debuted in the 6–2 Northern Premier League First Division South victory at Lincoln United on 18 August 2012,[40] and made seven appearances for the club before joining Gainsborough Trinity in January 2013.