Create 2nd website, store and store view
Note: At this point I could visit my base url and see no categories (I didn't add and categories to the default root category) then go to my new url which didn't have styles applied to it and see my categories and subcategories.
Apply magento blank theme to new store view
New url has selected theme applied and catalog navigation shows categories with subcategories
New url shows the default theme (luma) and catalog navigation does not appear (remember, no subcategories in the default root category)