I thought each site can be listed regionally AND thematically.
No. each site _may_ not be _listed_ at all. But each site may be _considered_ for listing regionally and thematically. And your site is conceptually listed in both already.
How? Well, as has been pointed out, World: Deutsch: Gesellschaft: Religion und Spiritualität: Christentum is a very general category, and any site should be listed in the most specific category that it fits. Casting my eye over the W/D/G/R&S/C subcategories, I see -- "Österreich@" -- well, THAT'S an obvious fit.
But the "Österreich@" "logical" subcategory IS simply the category where the site is listed: "World: Deutsch: Regional: Europa: Österreich: Gesellschaft: Religion und Spiritualität: Christentum."
This keeps us from having to list EVERY Austrian Christianity site twice; it keeps us from having to deal with every submittal twice; it gives us a way to collect all the appropriate submittals regardless of whether the submitter was surfing the Regional categories or the Society categories.
Generally speaking, a site is NEVER (what, never? no, never? what, NEVER? well, NEVER EVER!) listed in two categories which can be reached from each other with one click. What would be the the point? (Users who know how to use a directory will know which "related categories" to look in; other users will have to learn how to use the directory before anything we do will be effective for them.)