Forwards coach Leo Cullen will take temporary charge when training resumes on July 1 and Caputo believes a new-look coaching staff will bring the fresh ideas necessary to ensure Leinster return to the top four next term.
"Over the last few weeks, I took the time to seek out the opinions and thoughts of various people both inside and outside the Leinster environment about my future," said Caputo.
"I believe that my decision will give the new coaching and management staff the best chance of a fresh start for the new season.
"I would like to thank the players and backroom staff at Leinster for their efforts and the supporters for following us through all of last season's highs and lows.
"I have enjoyed the experience immensely and I have loved my short, but very eventful, 12 months in Ireland and being part of the Leinster environment."
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