I am having a similar problem, I think...
I have jetpak and see the subscribers under site stats, yet my theme also has a subscriber tab in the dashboard and those were the subscribers that transferred over from my wordpress hosted site to my self-hosted site.
Now I'm not sure who is getting the posts. I have a few names on the theme's subscriber list that don't appear on the jetpak list. How do I reconcile or combine the lists so that everyone is getting the posts?
also, the jetpak plugin should allow for an import csv function so that we can transfer / add the original subscribers from the wordpress hosted blog.