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I use Analyze Stack Window a lot, and the workflow is to copy stacktraces from output window and then hit "ctrl + 5" to open the Analyze Stack Window. The copied stacktrace is then automatically inserted into the window. However if i later have to return to the analyze stack window and hits the shortcut again, the stack that were in there is removed, if something else has been copied to the clipboard - some code for example. So my suggestion is to analyze what is on the clipboard before clearing the analyze stack window. If it is a new stacktrace, update the window, but if it is something not compatible (for example some copied lines of code) do nothing.
http://hg.netbeans.org/jet-main/rev/7d9f05d3eacf Sorry for late fix, but it will be fixed in dev soon.
Integrated into 'main-silver', will be available in build *201506250001* on http://bits.netbeans.org/dev/nightly/ (upload may still be in progress) Changeset: http://hg.netbeans.org/main-silver/rev/7d9f05d3eacf User: Milutin Kristofic <mkristofic@netbeans.org> Log: #246159 - Analyze Stack Window is cleared if opened with nothing on clipboard