Hello.
You can also make an Third one if you like.The Settings for each Version are saved seperate in the associated Folders.You can name it for Example "usbloadergx" instead of "usbloader_gx".If it really not work,please Backup the Version from the SD Card,delete the Folders Content and Copy the Modded Version into.
As long as you know which Version you want to Boot.
What will maybe not work is to automatically Boot into this third Version with BootMii/Prilloader or your actual installed Forwarder Channel.You possibly have to start it "manually" from the Homebrew Channel.
Thank you.