As far as I know, you can use the on-the-fly update feature of loadiine. Just create a folder named "updates"in your game folder and inside that another folder wich starts with a "v", e.g. vMyHack.
You can place the files that need to be replaced in vMyHack and run the game in loadiine by choosing that folder as an update.
P.S. Don't know whether loadiine supports update folders having letters after the v, but with numbers works 100%. It could be even possible you don't need the "v" at all.