He was pressed at Newbury 3 Dec. 1675, as a soldier for King Philip's War. He belonged to Maj. Appleton's Co. which was concerned the crack co. of the small army. He fought through the war with renowned "Flower of Essex.” In the the archives at the statehouse, Boston, is the original muster roll on the company and it is recorded; "Jonathan Emery, wounded in the neck." This wound from an arrow was received at the capture of the for in Narraganset, 19 Dec 1675. After his return from the war, he used a seal which he probably had engraved to commemorate his deeds and sufferings.

The lion represents the bold Brition inspiring terror, the arrow seized by the rampant beast, the emblem of the Indian Warfare, which from its position indicates the lions victory. He was made a freeman 19 Apr. 1691. His will was made 6 Feb. 1672/3, proved 2 Oct. 1723. Amount of inventory, two hundred and two pounds, two shillings, 10 pence.