If you're going to put it that way: There's precedent for only closing the window when you hit the window close, not the entire app. "It makes perfect sense in my opinion." Why would the entire app quit when I just want to close a single window? Most of the time, I don't want Limewire taking up my screen real estate (and the occasional Java bugs that Apple has with other apps' windows being on top of java apps' windows), and I really don't want it in the dock, either. I don't like clutter, and I don't want some background app taking up dock space. Unless there's a way to indefinitely share files without downloading and without taking up dock or screen space.

My preference would be to close just the window with the little X. I realize there's precedence either way, but, gidds, you can't marginalize my preference by guessing why and suggesting a bad alternative as justification.