Boyd's first coaching role was as coach of Tawa Rugby Club, where he spent nine years from 1989 to 1998. In that year he took over as Wellington's second XV coach, becoming assistant coach to the provincial side, the Wellington Lions, in 2003. From 2006 to 2008 he was assistant coach at the Sharks Super Rugby franchise. He then worked at the International Rugby Academy of New Zealand as a coaching services advisor, and was defensive coach for the Tongan team at the 2011 Rugby World Cup, with Tonga famously defeating eventual finalists France 14–19 in the pool stages.
Boyd was appointed as Wellington Lions coach in 2011, he steered his team to the 2013 ITM Cup final, losing out 29–13 to Canterbury
In the 2015 season Boyd became the head coach of the Hurricanes Super Rugby franchise along with John Plumtree as assistant coach. On 4 July 2015, Boyd guided his Hurricanes side all the way to the Super Rugby final, losing out 21–14. The following season he would go one step further and win the 2016 Super Rugby final. Boyd had become the most successful coach in the franchise's history to date, winning the Super Rugby New Zealand Conference twice
On 29 January 2018, it was announced that Boyd would become Director of Rugby at Northampton Saints as of August 2018
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