I’m writing this here so that the rest don’t have to spend as much time as I did figuring out that when using whitelabeling for email_passwordless, the format of the logo has to be PNG (or JPG). Otherwise it will appear in the application but not in the verification email.
Got it from here: Whitelabeling Passwordless Email Login · Web3Auth · Discussion #1294 · GitHub
But I think it should be added to the documentation.