Cloned Sites and Original Site Are All Affecting Each Other I am using Aegir to clone my Drupal 7 sites. I don't have any caching enabled on the original site. 

When I clone the site everything appears to work correctly, however changes to the drupal database are mirrored between all my sites. For example, adding a new user will add the user to all the sites. 

I have verified that separate databases are specified for each of the sites.

Any ideas what would be causing this?
I just figured it out. I have a wildcard SSL setup for my server. By default when you clone a site in Aegir it does not set it up as SSL. However, I was still able to access the cloned site via HTTPS.

The issue was caused by accessing the site via HTTPS when SSL was not enabled in Aegir for that specific site.

As soon as I enabled SSL for the site in Aegir the problem went away. 

I'm not exactly sure what was going on in the backend. It would be great if someone could chime in on that...