Samuel Jones (1628 – September 1697) was a Welsh nonconformist clergyman, who established an academy for educating dissenting ministers.
After being ordained by the presbyterians in Taunton, he became vicar of Llangynwyd, Glamorgan in 1657, remaining in post for five years.
He declined an offer from the Bishop of Llandaff of another position if Jones were to conform.
His good connections with local men of influence meant that he suffered relatively little.
He established an academy in Brynllywarch to educate dissenting ministers, drawing good candidates given his academic reputation.