http://bugs.winehq.org/show_bug.cgi?id=23015
--- Comment #6 from chaostya@gmail.com 2010-06-03 09:22:19 --- (In reply to comment #2)
What window manager and version of PL/SQL Developer you are using? Under Ubuntu 10.04/Gnome/8.0.3 the message dialogs are shown OK.
Ubuntu 10.04/Gnome/8.0.2.1505
To reproduce: Open 2 SQL windows and write 'select * from dual' in both. Close first - dialog shows ok, click taskbar for another app to show up, Alt-tab back to Developer, click to close second window - dialog shows behind main window and you need to drag it to see the dialog.