Divorce and child custody

Married in 2006. the disputes were already started in the early months. She was not willing to stay then too we Persuaded. Child born in 2008 0hysically handicapped due to accident of pregnant mother. 1.5 yes the mother stayed with daughter but then she left 2010 we got separated and 2011 filed a mutual divorce case. she took all the jewellery and gave the affidavit that she will out ask for any alimony or maintenance. 2012 she did not appeared and case got dismissed. since than we tried to get an answer from them but no avail. 2015 we her boyfriend called me and asked me why are you not giving divorce to her since they want to get married. After some time even she broke with her.... but in a conference call she admitted that she was with him for a month or so. though the claims by the boy are different. now she his asking for the child custody and earlier on she was ready to give me custody in lieu for some money.. which I agreed but later on again she denied. I filed a case for divorce which is pending in supreme Court for the transfer which she is looking for.... Mediation has failed. now my question is can supreme Court decide the matter at their end or will the transfer the case.