I had the same issue, lol.
Got the files and was like *ok, now what?*
I looked around at the permanent posts for manual patches and figured it out from there - when I dropped them into the main RoM folder
C:\Program Files (x86)\Runes of Magic
it worked without having to turn anything off, though I did have to allow them to run as the patcher got to them.
I hate touching things like this, lol. I always figure I'm gonna blow my game to smithereens or something.
I'm a dummy. I need instructions for dummies.