If you mean the zoom-to-cursor's function to follow the nearest ship to the cursor if it is moving, you can disable it by changing the line:
zoomToCursorLocksOnMovingEntities TRUE
to
zoomToCursorLocksOnMovingEntities FALSE
In your camera.setting file. It can be found in the following location:
Vista:
C:\Users\your username\AppData\Local\Ironclad Games\Sins of a Solar Empire\
XP:
C:\Documents and Settings\your username\Local Settings\Application Data\Ironclad Games\Sins of a Solar Empire\
Please note that some of these directories are hidden by default. To unhide them, go to Control Panel -> Folder Options -> View and set yourself to view hidden files and folders.