The Mayor has proposed James Cleverly, London Assembly Member for Bexley and Bromley, as his successor.
This move comes as part of Mr Johnsons plan to reorganise and refocus his team which has also seen him step down as chair of the Metropolitan Police Authority.
Speaking about the changes, Mr Johnson said: Two years into my job as Mayor, I am increasingly confident that I have the right structures and policies in place and the best people with the vision and drive to truly make London the best big city in the world.
To enable us to crack crime, give our young people the opportunity they deserve, clean up the environment and improve the quality of life in our capital, we need a relentless, single-minded focus to drive home our advantage.
The board was set-up to facilitate waste management across London by promoting and encouraging the production of less waste and increasing more environmentally friendly methods of waste collection and disposal.
Part of the boards remit is the allocation of an £84 million budget to drive forward recycling and waste management, a task which has fallen to the Mayor, in his role as Chair, since its inception in 2008.
Talking about his chosen successor, Mr Johnson said: James, a former soldier, is widely respected as a diligent representative of outer London as well as an effective board member of both the LDA and MPA.
Mr Cleverly, 40, also currently sits on the London Assembly Environment committee and hopes to use his experiences in Bexley and Bromley to aid him in his new role.
Seeing first hand the work of Bexley and Bromley, the boroughs I represent, that are both high performing boroughs in waste management, has convinced me that we can raise the bar in dealing with our waste across London if people are given simple, easy ways to do so, said Mr Cleverly.
I am thrilled at the prospect of taking on this challenging role. The London Waste and Recycling Board is in a unique position to improve Londons track record on recycling and waste management.
Subject to the Assemblys confirmation hearing, which takes place at City Hall on March 9, Mr Cleverly will stand down from his role as the Mayors Youth Ambassador.