Today we rolled out a new feature, ability to install a clean WordPress site to a new or existing domain.
This is integrated into the Clone feature which is now called Install/Clone WordPress.
The new feature is located on the Select source screen as a last option.
At this moment you can select a Clean WordPress Install which will allow you to install the latest, clean, WordPress install.
In the future we plan to add several installations among which we are preparing a special SEO optimized WordPress install, featuring best plugins hand picked by ManageWP founder, and WordPress SEO expert Vladimir Prelovac.