When the active fighting in the revolution ended, Yates again entered politics. A long-time Freemason, he became an officer in the Albany lodge and was the Senior Grand Warden of the Grand Lodge of New York in 1784-1788. In 1784 he ran for the state assembly. He represented Albany there in 1784 and 1785. In 1786 they sent him to New York City as a delegate in the Continental Congress. This would be his last major office. During the debate over ratification of the United States Constitution, Yates was an active Anti-Federalist.