Are you referring to the "Link with editor" functionallity which makes the package explorer select the current file for the current editor ?
If yes, then just toggle the "Link with editor" button on the package explorer (it's the yellow double arrow button)
This is btw. standard eclipse functionallity and together with sensible settings for hiearachial view and workspaces it is pretty nice IMO. but everyone has a different taste, thus there is an off button.