So there seems to be an InkThemes theme to these issues...
I download a trial version of the blackbird theme. The offending code that is causing the issue is the following which automatically runs a function to add the home page to every wp_list_pages() call:
You can remove this by adding the following to your theme's functions.php file, below all the includes at the top, but this will remove home from every use of wp_list_pages() on your site.
I'll add in some filters to the List Pages Shortcode plugin so that it will be possible to remove it just for the shortcode output.