Depending on how they're ultimately implemented (and, of course, assuming we actually even get them) I could see the merits of including them on the same map as habitats, as well as on their own map. Like, if it's possible to do mixed aviary/terrestrial animal enclosures then I see no reason to just separate them. But either way I think having a separate map would be neat to see, too.
I also don't recall if I actually ever posted in here before, but in case I hadn't: this is great, seriously. It's a really cool visualization and I thoroughly appreciate the effort you've put into this.