If you have only the possibility to use a FAT32 formatted USB drive to rip the ISO files CleanRip will split them to separate chunks.
For later use with the Dolphin emulator or maybe with a Batocera Linux they have to be joined together again. See following example:
cat RQJP7D.part{0..4}.iso > Crash.iso
As you can see you can join the files with the cat command back to one large iso file. Change filenames to your situation ;o)
Happy ripping/backup-ing your GameCube or Wii games.