In 1995, when Andrew left Wasps to become Director of Rugby at Newcastle Falcons, Bates followed him, becoming the Falcons' head coach. Bates was instrumental in attracting the fly-half Jonny Wilkinson to Newcastle in the summer of 1997, with Wilkinson having previously been a pupil at Lord Wandsworth College where Bates taught.[3] Under Bates, Newcastle were promoted to the Premiership at the end of the 1996–97 season and went on to top the league at the first attempt, in 1997–98; they reached the final of the Tetley's Bitter Cup in 1999 and won the trophy (by then known as the Powergen Cup in 2001. Bates left Newcastle in March 2003
In 2004 Bates was appointed as head coach of Border Reivers, taking over from New Zealander Tony Gilbert, who was returning home.[4] Bates successfully guided Borders back into the Heineken Cup in 2006–07 and, during his time with the club, also coached Scotland A to the final of the 2006 Churchill Cup, which they lost to the New Zealand Māori, after wins against England Saxons and Canada.
When the Scottish Rugby Union announced that Border Reivers were to be disbanded at the end of the 2006–07 season, Bates was headhunted by Newcastle Falcons to become their Coaching and Technical Director and rejoined the club in June 2007.[5] Bates was sacked by the Falcons in May 2010.[6]
In 2011 Bates was appointed the director of sport at Fettes College in Edinburgh.[2] Bates left to become head coach of England Rugby Union Under 20s in March 2017.[8]