Baillie, who joined the Warriors in December 2009, is moving south for personal reasons and will be pursuing new opportunities.
Remaining in position until the end of the current season, Baillie said of his pending departure: “I’m very sorry to be leaving Glasgow Warriors as I thoroughly enjoy working here.
“I firmly believe in the potential of Glasgow Warriors and it’s only a matter of time before it is fully realised. I’m sorry I won’t be here to see it. We have achieved some great milestones recently, most notably qualifying for the inaugural Magners League play-offs last year, and I believe more success will follow in future seasons.
“Working with the players and staff has been absolutely fantastic. Sean and all the support staff are extremely hard working individuals and are a real credit to Scottish Rugby and the rugby community in Scotland. To see some young players develop into world class athletes has also been a privilege and I will genuinely miss that.
“I am, and always will be, a Warriors fan and hope to return to Firhill to see the team in action when I am back in Glasgow. I remain fully committed to Glasgow Warriors and will continue as Chief Executive until my successor is in post as I want to ensure a smooth transition for everyone.
“I personally thank the Warriors sponsors – RESPONSE, Canterbury, McCrea Financial Services, David Lloyd and Xscape – for their wonderful support alongside the Glasgow season ticket holders who signed up in record numbers last year and the fans who turn up every week. Their support and that of Scottish Rugby will ensure that the club will continue to go from strength to strength.”
Scottish Rugby chief executive, Gordon McKie, added: “As chief executive of the Warriors, Kenny has made a valuable contribution to Glasgow and the wider organisation at Scottish Rugby.
“We will miss his good nature, sense of humour and knowledge of both the rugby and business communities in Glasgow.
“I know that Kenny will be focussed on ensuring the Warriors have a strong finish to the season and overseeing a smooth transfer to his successor.