Make sure to have 'Search Subfolders' enabled by clicking its checkbox. Make a copy of both of these, to serve as your backup. Create a new folder and wait while the disc's files are extracted to it.
Launch Dolphin and add your BFBB ISO to the game list.A copy of the GameCube BFBB ISO (if you have a modded Wii, you can dump it from the GameCube disc with a homebrew application).
This tutorial will guide you on setting up Dolphin to run a modded copy of the GameCube version of Battle for Bikini Bottom.
