The new combined company will trade under the name Siemens Gamesa Renewable Energy.
Martin will hold the reins during the transition period, before handing over to the next management generation and retiring.
Several senior management appointments were made during the company's first board meeting on 4 April.
Andrew Hall, former chief financial officer of Siemens Wind Power, takes up the same role at the combined company.
Xabier Etxeberria moves from business CEO of Gamesa to head the onshore business, while Siemens Wind CEO Markus Tacke will lead the offshore business.
Rose Garcia, chief executive for Siemens in Spain, has been appointed non-executive chair of the board.
"Siemens Gamesa Renewable Energy's future could not be in better hands, as it is equipped with a top-notch executive team and workforce that will shape the renewable-energy industry of tomorrow," said Martin.
"My responsibility during this next stage is to ensure the success of the natural succession process," he added.
The merged company has 75GW of wind power installed worldwide, with a presence in more than 90 countries and 27,000 employees.
Combined annual revenue stands at €11 billion, and the company has an order backlog of €21 billion.