I'm not sure, but I suspect you might encounter other issues later in your game if there still are some files that should've been packed and deleted by the patch. The best thing would be a clean install, and this time make sure you don't install it in the Program Files or the User folder, I think that's where the writing protection comes from. And when you run the PatchMe.bat, pay attention to what the script says at the end, it'll let you know if there was any problems.
I forgot to say, welcome to the community and enjoy the game
