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In the previous version, the Run As and Debug As had "Java Application" as the first option. Now, applet is the first option. That's annoying. Maybe in some cases it's most often run as applet, but for me application is 100% of the time. How hard would it be to either 1) Allow this to be customized (from the Run.. wizard for example) or 2) Do like Windows does with hiding menu items that aren't ever used
*** Bug 40564 has been marked as a duplicate of this bug. ***
This is related to Bug 41448, which requests that the entries be sorted alphabetically. I'd recommend adding a way to remove items from the list - a checkbox table in the preferences.
This is also related to context sensitive launching, which would be a better solution to the problem. I.e. a context/run menu that infers what type of launch configurations are applicable to the selection/active editor.
I'm going to mark this as a duplicagte. Context menu launching and activity filtering are intended to solve this problem. See bug 36495 for activity filtering, and bug 18338 for context menu launching. *** This bug has been marked as a duplicate of 18338 ***