what emu do you use? cause these differ in solution of naming the files.
for nintendont it's:
disc one: root:/games/
whatever you want/game.iso
disc#: root:/games/
whatever you want/disc#.iso
i recommand nintendont since it's still active development.
in
Trouble shouting is still one possible problem that might ocur found: the memcard
Swap discs
The swap request is detected and done automatically by Nintendont.
You need to use the ISO format (FST/Extracted file format doesn't work).
Place the two game iso files in the same folder and name the first ISO "game.iso" and the second one "disc2.iso".
Be sure you are displaying the known file's extension on Windows, if you name it "disc2.iso.iso" it will not work.