I figured this out. I dug around in the plugin files, and found where it was referencing the wordpress core files instead of the site address.
Here’s what I did:
In the class.wp-publication-archive.php file on line 77, change site_url to home_url. From what I understand, home_url is your domain, and site_url is where you core files are located.
See this for more info.
Hope that helps. Not a great idea to mess with plugin files in case of updates, but hopefully this will be fixed in the next release.