
Terry was forced off during Sunday's Premier League clash with Arsenal after a challenge involving Emmanuel Eboue.
"An X-ray taken immediately after John left the field did not show the injury," Chelsea doctor Bryan English said in a statement on the club's website.
"The fractures, which include his third metatarsal, were revealed following scans performed on Monday afternoon."
"However, as is usual with mid-foot injuries the fractures were revealed following scans, which were performed this afternoon.
"John will start his rehabilitation immediately with the Chelsea medical team and we will continue to monitor the injury."
Terry has already missed several games this season with knee and foot injuries.