Baikie was appointed manager of East Fife in 2006 during a turbulent period in the club's history. Despite this led the side to the Scottish Third Division championship the next season. The club stabilised under his leadership and Baikie managed to win a manager of the month award during the 2008-09 season. However in April 2009 the club announced the resignation of Baikie as manager.
Linlithgow Rose sacked boss David Baikie after they lost to Bonnyrigg. Baikie, who only 18 months ago led the club to Scottish Cup glory, was forced out the door with assistants Graeme Irons and Derek Carr.