how to get Marriage Certificate Correction done?

Hello, We got marriage certificate issued in 2014. The name of my wife was given as "A B C". Her original name on birth certificate (and all other govt issued documents) is "A D C". Her middle name was changed before marraige in 2012. (She was adopted, so her middlename was changed). We had made affidavits, newspaper ads, etc for the same. When she went for issuing "Passport", her marriage certificate was rejected. Reasons: the adoption is not possible for any child after age of 18 years. So basically her name change is invalid. Since marriage certificate was the only document, that she had with new name. We decided to change the name on marriage certificate itself. (Logically, the marriage registar should have not accepted the name change affidavit). Now we are told that marriage registar who signed the certificate, can only change it. Others cannot do it. (The earlier marrige register is not expelled from services) Please suggest what should we do.