Load the game and check the bottom right corner of the main menu, the version number is there. If it says 1.4 you're sorted (as Jim said).
If not, see below.....
Nasty fix ahead!
Just delete the file the patcher is complaining about. It will be replaced after the patching process. Please note, this hack was usually only used with the help_en.txt (inc other languages), I've not heard of the commands.cfg issue before.
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