Sorry, no, that's not what I said. WordPress only shows the CTA if I enter the shortcode manually into the page.
I have installed your latest version and you can see here that now instead of seeing ALL my posts as CTA custom post types it just sees four of them... http://awesomescreenshot.com/035a3vr6f
Also, because you've kept the same name/version HubSpot's own version sees itself as an update. I think you either need to change the name or come up with your own version numbers ahead of HubSpot's.
So just to recap, entering CTA number calls manually into the page works with both your update and the original, however the original shortcode popup sees all of my posts as CTA custom post types, but the update can only see four posts and thinks they are CTAs custom post types.
Sorry I don't have any better news to report.