JFK ordered the NATO missiles in Turkey to be removed, They were.
This caused a problem in NATO, JFK was not the commander of NATO and had no authority of issuing the order without involving the other NATO members.
>" On Saturday evening, after a day of tense discussions within the "ExComm" or Executive Committee of senior advisers, President Kennedy decided on a dual strategy—a formal letter to Khrushchev accepting the implicit terms of his October 26 letter (a U.S. non-invasion pledge in exchange for the verifiable departure of Soviet nuclear missiles), coupled with private assurances to Khrushchev that the United States would speedily take out its missiles from Turkey, but only on the basis of a secret understanding, not as an open agreement that would appear to the public, and to NATO allies, as a concession to blackmail. The U.S. president elected to transmit this sensitive message through his brother, Attorney General Robert F. Kennedy, who met in his office at the Justice Department with Soviet ambassador Anatoly Dobrynin... "<
The Cuban Missile Crisis, 1962: Anatomy of a Controversey