Before a ship cloaks, enable "Follow Target". When the ship cloaks, you won't be able to target it, but will be facing it when it decloaks. When a ship cloaks, you can still see the shadow if it moves over you. You can also see it on the map by dragging the pointer over it. if facing a cloaked ship and do not have the Anti-Cloak, try to use the colored bars when you turn your ship. This will help you decide which shield section to send power to.