[Alneyan]

You cannot build anything while being cloaked (if memory serves), so a spaceyard building something cannot engage cloaking mode.

You will get an extra level per different component on the analysed vessel. So if there were one Phased Shield I, one level II and one level III, you would get three levels in Shields (assuming you have only level 3 for example). The same goes for components not belonging to the same family.