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We have branded window system and a few standard TopComponents disabled in our application. Probably since upgrade to NetBeans 6.7 we noticed that some of these components sometime appear after suite start. This is happening only when application is started as suite from NetBeans. When running from zip distribution everything looks correct. These topComponents appear only sometimes, I think typically after test userdir is cleared, but not always (not sure what exactly it depends on). Usually it's problem of "Files", "Services" and sometimes I noticed also "Tasks" and "Kenai dashboard" (which is strange, because we have disabled whole this cluster).
I'll need a reproducible test case to evaluate this. Maybe you just need to do a clean build to refresh your user dir?