jtnorwood on "[Plugin: WordPress SEO by Yoast] Strip the category base removes page template"

When I activate the "Strip the category base (usually /category/) from the category URL" function in Yoast WordPress SEO the page templates I use disappear. The post is still there but the template attributes (i.e Blog Style, Sitemap, etc...) are removed.

This problem persists across multiple themes including the default.

Any ideas on how to fix this?

http://wordpress.org/extend/plugins/wordpress-seo/