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Does apps/user/handlers/verify.php have any effect on the user (flag them as verified or similar)? It looks like it just removes the verifier from userdata.
Once the email/key combo are verified, it just erases the verifier to mark them verified.
So is there a method to check if they're verified?
You can check if that field is present. If so, they're not verified yet. If it's missing, they must have been verified or added through another means (admin added them, for example).