It won't help you, but no matter what application I use to design my websites, I never use the built-in uploader in any of those software packages. I always use an FTP program and directly upload sites and site content. I'll need to create all appropriate directories and upload content specific to each directory. I can control permissions on each directory, and other issues. I prefer to use FTP because I have more control, and find problem solving easier to deal with when doing it this way.