I have a similar set-up where new user registrations are auto approved. I am able to receive the email notification but not all of the short codes are visible in the actual email I receive. the email shortcodes are set to the installation defaults.
This is the email format
{display_name} has just created an account on {site_name}. To view their profile click here:
{user_profile_link}
Here is the submitted registration form:
{submitted_registration}
The submitted registration shortcode is the missing component in the actual email sent. all of the others work.
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https://drive.google.com/file/d/0B2RzD6ZEVpIuRVZITW5uUTYzdnc/view?usp=sharing