well the easy way of doing this would have been to point the new domain name at the same folder that the current domain points to. then go into and change the wordpress url. that way both domain names would bring up the same site and use the same database.
creating a DUPLICATE of an existing site involves a number of steps. It is best to follow the instructions in the WordPress Codex: Moving WordPress
to just copy the Atahualpa settings to a new (or old) WordPress site
1) make sure both versions of Atahualpa are at the same version (3.4.9 or higher)
2) go to the old site and EXPORT the settings (ATO->Export/Import Settings)
3) go to the new site and IMPORT the settings (ATO->Export/Import Settings)
now you will have a copy of the settings without having touched the users, posts, images, plugins etc