In the meantime I had started updating a copy of the backup so had two copies with different edits made over several months.
I then recovered the changes manually by unzipping the two geno profiles and using a diff tool to compare the xml files. You can then edit the master file adding the changes as appropriate. You could edit a copy of the master file if you want to be able to recover after the editing for any reason.
When doing a diff some of the attributes can cause pain like position which you arent really interested in. A smarter diff tool might help I dont know of one that smart and for a small file its workable.
For things like pictures, sounds and other files you can use a diff tool that handle directories to do that as well. That part is actually easier to do as diff tools can handle that easily.