One thing that bugged me from the beginning was that I have a folder “Data” where I write temporary files and NetBeans kept complaining about those files. I though it would be an easy rightlick->ignore folder. Well yeah it wasn’t. It took me about half an hour to find a way to ignore folders in NetBeans PHP.

Here is my solution:
Goto: Tools->Options->Miscellaneous->Files
Edit the Ignore Files Pattern:

^(##INSERT_FOLDER_HERE##|CVS|SCCS|vssver.?\.scc|#.*#|%.*%|_svn)$|~$|^\.(?!htaccess$).*$

(replace the ##INSERT_FOLDER_HERE## with your folder name [example.: "Data"])
it’s a regular expression so if you know how to handle it -> your lucky; if not try it and/or ask for help

Here is a picture how it could look: