Accept it - your shoulder is no longer the problem - it's fine.
What's messed up is your pain reception/ pain pathways - as it is very common in Chronic Pain.
Look up 'Complex Regional Pain Syndrome' and check whether you have a Clinic close that deals with this. They are usually multidisciplinary, e.g. have a Physio, Occupational Therapist, Medical Pain Specialist and Clinical Psychologist all working as a team.
Good luck,
Fyzzio