sorry for the late reply, i have been on travel.
two conditions need to be present for this to occur(at least as far as I have seen):
1. I have only seen this happen for scheduled posts, maybe it has something to do with the way wp-cron publishes articles vs manually publishing.
2. Another plugin needs to attempt to apply "the_content" filter. The problem shows when I use the WP Book Lite plugin.
http://wordpress.org/extend/plugins/wpbook-lite/
