Wilksby was mentioned in Domesday Book of 1086 as "Wilchesbi", with the Lord of the Manor being William I. The name is derived from the Old Norse "Vilgeirr's/Vilgerth's" + "by", meaning the farmstead of Vilgeirr/Vilgerth.
A church has known to have been on the site for at least 800 years, with the first recorded rector was Simon de Tynton in 1230. The stone font dates from the reign of King John (1166-1216), with the earliest written records from the church from 1563.
Wilksby lies in the foothills of the Lincolnshire Wolds, an area of limestone and sandstone hills forming the highest ground between Yorkshire and Kent. The village itself is in the valley of Mareham Beck at about 25-30m above sea level, whilst the church sits atop the hill to the north of the village.
The roads leading to and from the North and East of the village are wide suggesting their use as ancient droving tracks.