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This was exactly the issue! I just pushed fixes for this problem.

I've written a userscript[0] before regarding official websites and I feel this is the hierarchy you should be using:

1. Try getting the Wikidata "official website" property

2. Then any link inside of a {{url}} template or |website= in an infobox

3. And if you really want to try to get something to resolve to, the first site wrapped in {{official website}}