Rockefeller was born in New York City, New York. He grew up in an eight-story house at 10 West 54th Street, the tallest private residence ever built in the city. Rockefeller was the youngest of six children born to financier John Davison Rockefeller Jr. and socialite Abigail Greene "Abby" Aldrich. John Jr. was the only son of Standard Oil co-founder John Davison Rockefeller Sr. and schoolteacher Laura Celestia "Cettie" Spelman.

In 1964, along with other American business figures such as Sol Linowitz, Rockefeller founded the non-profit International Executive Service Corps which encourages developing nations to promote private enterprise. In 1979, he formed the Partnership for New York City, a not-for-profit membership organization of New York businessmen. In 1992, he was selected as a leading member of the Russian-American Bankers Forum, an advisory group set up by the head of the Federal Reserve Bank of New York to advise Russia on the modernization of its banking system, with the full endorsement of President Boris Yeltsin.  Rockefeller had a lifelong association with the Council on Foreign Relations (CFR) when he joined as a director in 1949. In 1965, Rockefeller and other businessmen formed the Council of the Americas to stimulate and support economic integration in the Americas. In 1992, at a Council sponsored forum, Rockefeller proposed a "Western Hemisphere free trade area", which became the Free Trade Area of the Americas in a Miami summit in 1994. His and the Council's chief liaison to President Bill Clinton in order to garner support for this initiative was through Clinton's chief of staff, Mack McLarty, whose consultancy firm Kissinger McLarty Associates is a corporate member of the Council, while McLarty himself is on the board of directors. He was also a trustee of the Carnegie Endowment for International Peace, including 1948, when Alger Hiss was president.  Displeased with the refusal of Bilderberg Group meetings to include Japan, Rockefeller helped found the Trilateral Commission in July 1973.

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