Osteologists are now examining the bones for signs of foul play.
Dr Rachel Wood, the project archaeologist, said: “We already knew that Buckinghamshire is rich in archaeology but discovering a site showing human activity spanning 4,000 years came as a bit of a surprise to us.
“The death of the Wellwick Farm man remains a mystery to use but there aren’t many ways you end up in a bottom of a ditch, face down, with your hands bound.
“We hope our osteologists will be able to shed more light on this potentially gruesome death.”
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