Wilkinson has not featured for the Potters since sustaining a bang on the head in the FA Cup defeat at Blackburn in February.
A brief club statement read: “Stoke City can confirm that Andy Wilkinson has been given a contract until December 31, 2015 to enable him to regain full fitness with the support of the club’s medical staff after sustaining an injury last season.”
Wilkinson, who has spent his entire career at his hometown club since progressing through the academy, was out of contract and waved an emotional goodbye to fans at the end of last season.
The 30-year-old has made over 190 first-team appearances for Stoke since making his debut in 2001 and has had loan spells at Telford, Partick Thistle, Blackpool and Shrewsbury.
He is hoping to return to competitive action in January.