I think for shared libraries, the convention is to have the major version number of the API in the name (e.g. foo.so, foo2.so) and then to put any ABI changes as a trailing extension (e.g. foo.so.2, foo.so.3, foo2.so.2, foo2.so.3). It's kind of a hack, but it makes sure that you can link unambiguously to one if you need it.

EDIT: didn't realize you were talking about Gobo specifically; not sure how they deal with this, but theoretically a similar strategy seems like it could work