It will load apps that are external to the emulator. I am not familiar with your problem but it sounds like this is a process that is internal to epsxe. If an external solution (like something somebody made to fix some problem in epsxe) exists then you can use "additional apps" in LB to automate loading it before the emulator.
The problem we were talking about is that you have to set this up manually, game by game, as things are right now.