You can also interact with the EFI boot entries from user space with efibootmgr. Changing the boot order, as well as adding or removing boot options, is pretty simple once you know the commands.
rEFInd also has a built-in tool which piggybacks off of efibootmgr to set itself as the primary boot option. It has to be run from the installation where you installed rEFInd of course:
sudo refind-mkdefault