Daniel,
I have the same issues but I have stuck with disqus. WP users and Disqus users are not the same and do not have the same structure, for e.g. some of my users have spaces in the names and this is not supported or recognised by disqus. My users were very confused that they had sign up again and they had lots of errors due to the space and structure problem.
I have noticed that more people are commenting due to the easy way to comment, however I think that disqus would be more accepted if the users were synchronised on first install and a disqus user is added to the wp users base….
thanks for a great plugin.