As her playing days drew to a close, Shepherd was appointed as the Spartans manager to succeed Debbi McCulloch in late 2015, taking up the role for the
2016 season in which the club finished 6th. They improved to 5th in
2017, but she stepped down at the end of the year. At that time she was also working as the assistant to
Pauline Hamill, coach of the
Scotland under-19 team. Intending to take a break from the game, she was soon invited to take a leading role at
Boroughmuir Thistle, an Edinburgh club with an extensive youth team network for girls but no financial backing from a men's club. The club survived at that level for three seasons, but Shepherd resigned as head coach at the end of
2022–23 campaign. In her vocation as a
personal trainer, In March 2024, Shepherd was appointed head coach at
Dundee United, after Graeme Hart was sacked with the side struggling near the foot of the table in their first-ever season in SWPL1. Two months later, the team retained their place in the top division by defeating
Kilmarnock in the relegation/promotion play-off. Tipped again as likely relegation candidates before the
2024–25 season with three clubs to go down as the league was restructured, the young
Terrors squad struggled badly (big defeats in the opening months of the campaign including 9–0 to Celtic on the opening day, 10–0 to Rangers and 13–0 to Glasgow City) and were confirmed as relegated with a month of the season remaining. ==Honours==