Well, that is where the real problem is, stand alone emulators works ok, i have already setup an arcade cabinet this way, but after using Retroarch i cant see myself using Vanilla Mame, VBA, SNES9X, etc, ever again, the Vanilla versions of those emulators lack too many things that the core versions inside Retroarch has, not to mention the exclusive cores that you can only use in Retroarch, and the consistency across video and audio even from different sistems, too many things to list.
If i cant make Maximus work i going to give MaLa a shot, but damn, Maximus is not very customisable but i a love the simplistic look and user friendliness.
EDIT: Finally, i have found the solution, you just need to add "%file" to the command line:
%file -L C:\path\to\cores\core_name.dll
Just add "%file" and you are good to go!