When doing a console application in Java with Eclipse, I see the output being put in a text box in the IDE itself, instead of having a console popping up like in Visual Stud
regarding System.Diagnostics.Debug producing a lot of "junk" in the Output window:
You can turn that off by right clicking in the output window. E.g. there's an item "Module Load Messages" which you want to disable and an item "Program Output" which you want to keep.