[1] He was born in Wales, eldest of the five sons of Lewis Jones, Bishop of Killaloe and Mabel Ussher.
Whilst in captivity he offered to go to Dublin to present a petition on behalf of the rebels, where he was able to report on their plans.
He then did much to mitigate the sufferings of the Protestants during the war, including making a trip to London to collect money for their relief.
He served as the head of a "Commission for the Dispoiled Subject" which documented losses of Loyalists at the hands of the Irish rebels; Jones presented a report to the British House of Commons in March 1642, and in 1652 published An Abstract of some few of those barbarous, cruell massacres and murthers of the Protestants and English in some parts of Ireland, drawn from the commission's depositions.
[4] On 27 October 1645, he was raised to the episcopacy as the bishop of Clogher on the recommendation of the Marquis of Ormonde and was consecrated in Christ Church, Dublin, on 9 November.