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To reproduce: 1) Start IDE in default MDI mode, create a Web Module, add a jsp and add to a J2EE app 2) Set a breakpoint in the jsp 3) Select the J2EE app in the Explorer and choose Debug->Start Session->Run in Debugger Result: The debugger stops at the breakpoint, but the Debugger Window fails to open. See work around.
The debugger window should be displayed when a debugging session is started. And it usually works, at least for debugging J2SE applications and JSP's. If it does not work for J2EE applications, the bug is maybe in the module responsible for starting up a J2EE debugging session. This bug will not be fixed in NetBeans 3.5 and Sun ONE Studio 5 due to tight schedule.
Debugger Window should not be opened automatically. Can you open it manually form menu? Do you have Debugger Workspace OK?
Verified ... and Closing all issues resolved into NetBeans 6.7 and earlier.