DMTing Alternate Methods Problem

Using 9.05.607A, we are trying to migrate out production methods and alternate methods. We are finding that when we create an alternate method, the system automatically duplicates what it finds for the base method as a starting point for the alternate method. This is forcing us to perform additional DMTs to then delete the unwanted data given our alternate methods are no where close to the original methods. Is there a way to prevent this automatic duplication during DMT?