In ObjectDock there should be a dock item specific setting to decide if this item should be displayed in the dock's taskbar.
E.g. I have a dock item for Lotus Notes to access the application. A running indicator shows if the app is running. But I get the same icon in the taskbar section. For this item (and some others) there is no need to displayed twice in the dock.
I think that MobyDock has this option, but ... OD is still the best!
What do you think about that?