In case someone has the same problem - I found this handy tool - http://www.dotnetftp.com/ - to quickly grab the correct files from your VS.NET project and upload them by FTP to your hosting. I'm not sure exactly what I was doing wrong - but this fixed it!
I'm having a problem deploying my web app to a remote server that I only have FTP access to. I can't create an .msi file as I wouldn't be able to run it on the remote server. I have tried FTPing the required files from a local project up to the server, but they create errors which seem...