It was found, that all views are correctly closed, but then Variables window is opened again, due to CodeEvaluator:

        at java.lang.Thread.dumpStack(Thread.java:1206)
        at org.netbeans.modules.debugger.ui.views.View.componentShowing(View.java:107)
        at org.openide.windows.WindowManager.componentShowing(WindowManager.java:330)
        at org.netbeans.core.windows.WindowManagerImpl.componentShowing(WindowManagerImpl.java:1057)
        at org.netbeans.core.windows.view.DefaultView.changeGUI(DefaultView.java:161)
        at org.netbeans.core.windows.ViewRequestor.dispatchRequest(ViewRequestor.java:269)
        at org.netbeans.core.windows.ViewRequestor.processRequest(ViewRequestor.java:245)
        at org.netbeans.core.windows.ViewRequestor.postRequest(ViewRequestor.java:183)
        at org.netbeans.core.windows.ViewRequestor.scheduleRequest(ViewRequestor.java:123)
        at org.netbeans.core.windows.Central.activateModeTopComponent(Central.java:1753)
        at org.netbeans.core.windows.WindowManagerImpl.topComponentRequestActive(WindowManagerImpl.java:1180)
        at org.openide.windows.TopComponent.requestActive(TopComponent.java:789)
        at org.netbeans.modules.debugger.ui.views.View.requestActive(View.java:181)
        at org.netbeans.modules.debugger.jpda.ui.CodeEvaluator$7.run(CodeEvaluator.java:478)
        at java.awt.event.InvocationEvent.dispatch(InvocationEvent.java:209)
        at java.awt.EventQueue.dispatchEvent(EventQueue.java:597)
        at org.netbeans.core.TimableEventQueue.dispatchEvent(TimableEventQueue.java:104)
        at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:269)
        at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:184)
        at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:174)
        at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:169)
        at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:161)
        at java.awt.EventDispatchThread.run(EventDispatchThread.java:122)

Incorrect info in wiki:

67fixes1-candidate -> 67patch-candidate

Fixed in trunk in changeset:   134473:d99ea0393f0e
http://hg.netbeans.org/main/rev/d99ea0393f0e

Integrated into 'main-golden', will be available in build *200906110201* on http://bits.netbeans.org/dev/nightly/ (upload may still be in progress)
Changeset: http://hg.netbeans.org/main-golden/rev/d99ea0393f0e
User: mentlicher@netbeans.org
Log: #166625 - Do not open results when debugger is finishing.

Could you please provide some steps to reproduce, so that I can verify? I was unable to reproduce this in earlier builds
nor in RC3. In all of about 15 attempts the Variables view remained closed.

I was not able to reproduce this since the fix -> marking as verified.

The fix has been ported into the release67_fixes repository.
http://hg.netbeans.org/release67_fixes/rev/e62d8c270cb5

reproduced on 
Product Version: NetBeans IDE 6.7.1 RC (Build 200907150227)
Java: 1.6.0_13; Java HotSpot(TM) 64-Bit Server VM 11.3-b02

verified in 671rc1 - variables window should stay open if you opened that window before running debugging session 

back to fixed

verified in 671rc1