First i can't build MicroFighters when i have cloaked ships disabled. However these ships aren't cloaked are they? They are just supposed to detect cloaked ships.
When cloaked ships are disabled, then all the ships that have tachyon beams are also disabled, since that's only useful against cloaked ships. A lot of people would complain if they got the microfighters without cloaking on, since half their function would be gone!
Second when i nuke someone it destroys all the planets in the whole galaxy. Is it supposed to do that?
Which nuke? Nuke 3, or nuke 1? That's what the nuke 3 does, sounds like you may be using that?