Imagine that you have to work on a large project that's already on a ftp site. Whate do you do in NetBeans?
Make a project, attach a FTP connection and path. And then download all the files or manually select the files to 
download from a list that could be tens of thousands of names long.

This is very bad for someone who works on large projects because just the setup can be extremely time consuming.
It would be much better to have something like a FTP/SFTP explorer where the remote project would simply get a root 
file path and then display the remote file structure, downloading just the files the user is working on (maybe also the 
includes -for PHP for example- in the background as the user is working).

Also bad is the automatic appending of the project name to the remote file path, some independence wouldn't hurt.