EPUB readers on macOS are really limited and there aren’t a lot of automation compatible options right now unfortunately. You best bet is Calibre, it’s quite extensible and there is some integration with Hook though I think you’d have to build it out for deep linking.
I hate Calibre’s UI/UX however and rather than try to build out what I wanted I’m just going to wait and see what Readwise’s Reader ends up doing with EPUB.