Thank you.  I have read the articles you referred me to an I find them less than convincing of how you allege Fr Conley was treated. The SF Weekly seemed to go to extraordinary lengths to discredit Cardinal Levada and to be more interested in this than what happened to Fr Conley.
Further searching revealed this:-
http://hosted.ap.org/specials/interactives/_documents/conley_documents.pdf
These documents tells a different story than the one you posted.