Membership2 emails and HTML Email Templates

My Membership2 emails seem unaffected by the HTML Email Templates plugin. I’ve configured a template that is working for system emails, and I’ve also checked the “Modify HTML Emails” box within the plugin, but my Membership2 emails are still going out plain, with no theme/branding.

Do these plug-ins not work together? Is there something I can do to make my Membership2 automated emails more attractive?