I have been using NetBeans for a couple of months now, and I must admit that except for a quirk here and there the overall experience of switching from Zend Studio was a pleasant one.
Since switching to 6.9 I had some trouble using the integrated Refactoring utility. There error I got was:
The Rename refactoring cannot be applied in this context.
The solution is a simple one, use the built in shortcut “Ctrl + R” (or “Cmd + R” on a Mac).
The other thing that bothered me is that when you select a method or class and use the context menu to navigate to the declaration of the method/class Netbeans doesn’t do a thing. To make this work the method/class name must not be selected (or you can use the + click shortcut).