I have exhausted all resources and cannot find a yes or no answer, or even any references to this. Is there a way to organize a published site into directories, I'm sorry, folders. I like to place my pictures in an "images" folder, downloadable PDF's in a "pdf" folder, etc. but see no way of doing this. My root directory is extremely cluttered the way WP publishes. Thanks.
The structure in which all Serif applications publish to web is set for that particular program and cannot be adjusted. You can of course publish into folders and I've seen customers of ours with several sites published into different folders before creating a 'main page' from which you can navigate into these subfolders using links to their respective index.html files. However, I think what you're after cannot be done.
The only exception would be to upload your PDFs into a subfolder and then link to them in your design rather than including them in the design directly... that sort of thing is quite easy, but I think you'd need a seperate FTP client to upload those files with.
If you want WebPlus to upload (say) PDF files for you, insert a blank HTML Web Object in a new document and use the Files section of the dialog to specify the files you want to add. Upload to your PDF folder in the usual way, and then use the Maintain Web Site facility to delete the superfluous HTML page.
That's the way I have been doing it thus far. It's not really the problem though, I am kind of a neat freak with my webs! I like to have everything organized into their own subdirectories and Webplus is driving me crazy by putting everything in one directory and the two generated directories! I really like Webplus even with the limitations. It works well for someone whose web space doesn't give them Frontpage extensions, etc. so I'll keep using it for those times anyway!