XavierEstrago: As far as I'm sure, I've deleted all the system files period, when uninstalling the game. Clean slate.
Then I installed the game again, to my desktop this time. It ran the activation patch, and then put in the "DLC files", but not the whole files, I guess something that looks like it's just a placeholder, as the files are 1kb each.
Then I tried running 1.1, and it said Incomplete Files error, then I deleted those DLC files, and tried running both 1.1 and 1.2 which both give me the same error
The uninstaller won't remove all the files. It will only remove the files the uninstaller was programmed to remove and that excludes all the mods.