I won't retype the whole thing here, but I had the same question about integrating PS2 games into RL which used PCSX2 and the nuvee plugin. Long story short, You have to take advantage of the "user options" in the RL "Lib" folder. With user options, you can execute scripts that can do anything you want (if you are fluent in AHK scripting!) at any time within the game launch process. The thread was started by me in the "modules" forum. I will put this here...I hope this does not violate forum rules:
hxxp://www.rlauncher.com/forum/showthread.php?4855-Can-PCSX2-module-allow-execution-of-an-AHK-script-before-game-launch&p=37142#post37142
Good luck!!!