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I suggest that it be possible to restore closed "output" panes, or to "pin" them so that they don't get closed when a new application runs. Why I'd this: I have a small project that runs about 1-2 hours and produces a lot of output that I want to analyse for exceptions later. I run 4 jobs at the same time and then go to work or sleeping. When I come back to the computer, all my output is sometimes lost if I start a different application because netbeans closes the panes. (I know, I could also produce a real logfile instead...)
Reopening closed tabs would be quite difficult to implement, but keeping existing tabs seems reasonable. Thank you for reporting.