Rogers will take up a role as the chief executive of the Tauranga City Basketball Association in mid-May.
His partner, and BBO director of development, Rachel Gwerder, will follow him to Tauranga later in the year with the their two children.
BBO chairman Ricky Carr said it was a double blow for the association but also an opportunity to look at its structure.
"They came to the organisation when it was in a state of flux and certainly shaped it up," Carr said yesterday.
"We are very thankful for the hard work and expertise that they have provided to the Otago basketball community over the last five years. They have put such a huge effort into building the organisation and developing the sport."
The board would meet on Tuesday and "thrash out where we need to go and what direction the organisation needs to head in".
"How we structure that will depend on the availability of people with the right skills. We want to maintain the progress we've made, especially in the development area. I think we are well known throughout the country now as an incubator for young basketball players."
Rogers said he was sad to leave Dunedin but also excited by the challenge ahead.
"There is huge potential in Tauranga," he said.
"It is a city that is expanding, there are new facilities being built and it's an exciting opportunity."
Carr said BBO would look to appoint someone as soon as possible.
But whoever steps into Rogers' shoes will not have an easy path.
BBO is the sole owner of the Nuggets franchise and the semi-professional team has been a financial drain on the organisation.
"It has definitely made the job more challenging, trying to run a franchise as well as grow an association," Rogers commented.
"Resourcing it and trying to meet the standards set by the other franchises around the country has been a challenge. It is a pretty difficult job for sports organisations in Dunedin to try and match the bigger budgets and centres around the country."
Rogers said he was leaving the organisation in good health and was particularly proud of the work he had done with Gwerder in helping grow the sport at the grassroots level in the region.
"The development programme which we've put in place and Rachel has driven, and the results that have come out of that, have put the organisation in good stead for the future. We are now starting to see players who come through that programme starting to feature for the Nuggets and for national teams. That's probably been our biggest achievement."
Rogers' stint with the association has not been without its road bumps. Long-serving board member John Brimble resigned in 2008, citing a need for change at the top.
Former BBO employee Alan Ayson issued the board an ultimatum that year - either Rogers went or he would - and former Nuggets general manager Warrick Diack quit because of a dispute over money.
BBO's decision not to enter a team in the 2009 National Basketball League, citing an unwillingness to continue to prop up the cash-strapped team, was received poorly by the basketball community, which rallied around the beleaguered franchise in a desperate attempt to keep the side on the court.
Sweeping changes to the BBO board in August last year, and financial support from OceanaGold, ushered in a re-think and a successful bid was made to re-enter the league this season.
