I downloaded the Creation Kit to try something out, I tried to run it and it said something like it couldnt detect the game so I went into my Skyrim folder and IT WAS UNINSTALLED! Almost everything was gone even SKSE. Now I'm sitting here waiting for it to reinstall.

Is this heard of?

i have heard of uninstalling the CK to cause Skyrim to randomly delete itself, but never something like this, sorry.