I don't think they are talking about placing an override on the disk itself. That has nothing to do with the title remote etc. And yes, I would gamble (cause I don't like all those "errors") by removing that override to see if it helps in any way. Probably won't.
The save as may not work (try it). And Encore tracks a lot of stuff that you can't access (that's where phantom orphan's come from), so you need a brand new name.
You can import menus from the old project if you have modified them, but you have to redo the navigation.