If you open a vanilla Skyrim script and edit it, IT IS CHANGED FOREVER (unless you back it up first) because the files are saved outside of the esp file you are working with.
BE VERY CAREFUL not to "experiment" with a vanilla script unless you have the script file backed up first!
I did this, then closed my CK and the ESP file without saving the esp, but when I next opened the CK the scripts were still changed even though I did not save that session.
This is very different from Oblivion, the scripts were copied to the esp file and you would change that copy of the script there in the esp file not on your hard-dive.
Now maybe this is only for the CK and not for the game, I do not know that yet. Meaning the script is saved to the hard dive for the CK to work with but for the game it then gets saved into the ESP, I mean it would have to I guess...
I hope I am somehow wrong about this, but I thought I would post what I saw happen just in case...

