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After unzipping freeform project http://qa.netbeans.org/modules/debugger/promo-h/freeform.zip if you right click on project there is not Debug project item. From Debug menu, menu item "Debug Project(FreeForm) Ctrl+F5" is available and if you click it a dialog appears asking to generate the IDE-Specific target. The Projects window context menu should have the same behaviour.
Yes, you are right. This testing freeform project is very old and must be updated for the new project system. I will fix this.
Oh, I completely forgot about this being as designed [1]. I have to close this as WONTFIX then. Thanks for your feedback anyway William! [1] http://wiki.netbeans.org/TS_74_JPDAdbg_Functionality#Test_suite:_Free_Form_Debugging