Vernham Dean is not recorded in the Domesday Survey because at that time it was still part of the manor of 'Esseborne' (Hurstbourne), held by the King. In 1177 Henry II granted Vernhams Dean to Henry de Bernevall and his heirs, where it remained until 1216-17 when, the rent possibly falling into arrears, Henry III granted the manor to Thomas Basset the Younger. Roger de Bernevall regained possession shortly afterwards, but was killed in battle in 1226, when the king gave custody to his wife's brother, Robert Haget. It later passed to Roger de Bernevall's brother, Reginald. It continued in the Bernevall family until the death of Gilbert de Bernevall in 1277, when it was divided among his surviving relative. It was eventually given to Winchester College.
The church was a chapelry dependant on Hurstbourne Tarrant until 1871, when it became a vicarage in its own right. It was completely restored in 1851 by Arthur Ashpital according to the List Description, but according to The Builder (1851), 'the whole is said to be the design of the curate, the Rev. J. M. Rawlins'.