it sounds like there is an issue with your site settings.
If you set your site correctly, it will not put the webassist folder in a sub directory, your site should be set so that the httpdocs folder is the root of the site in dreamweaver.
Your friends over here at WebAssist! These Dreamweaver extensions will assist you in building unlimited, custom websites.
These out-of-the-box solutions provide you proven, tested applications that can be up and running now. Build a store, a gallery, or a web-based email solution.