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1. Launch your inner. 2. Make a new Java project. Make a class. Add a hello world print statement. 3. Ctrl+Shift+B for a breakpoint. Right-click > Debug As > Java Application 4. When prompted, confirm to switch perspectives. 5. The 'Debug' view's content will flash for a second before going empty. F8 to let the application run to completion. 6. The 'Debug', 'Variables', and 'Console' view's stacks will all not activate. You can only activate the editor area and the 'Outline' view's stack. Closing views will not save you. 7. Window > Open Perspective > Java 8. Magically, the 'Variables', 'Debug', and 'Breakpoints' view are now appearing in the bottom stack.
Just open a file and then switch to the 'Debug' perspective. Then try to activate the editor and views and you will soon get into the state where the top two stacks will no longer take activation requests.
Eric and I have released a fix for this problem in the PerspectiveStackRenderer.