After resuming his political career in New Jersey, Dayton died on October 9, 1824, in his hometown. He was interred in an unmarked grave that is now under the St. John's Episcopal Church in Elizabeth, which replaced an original church in 1860. Shortly before Dayton's death, Lafayette visited him, as reported in an obituary in the Columbian Centinel on October 20, 1824: "In New-Jersey, Hon. JONATHAN DAYTON, formerly Speaker of the House of Representatives of Congress, and a Hero of the Revolution. When the Nation's Guest lately passed New-Jersey, he passed the night with General Dayton, and such were the exertions of this aged and distinguished federalist, to honor the Guest, and gratify the wishes of his fellow citizens to see, that he sunk under them ; and expired, without regret, a few days after."