The following is a very simple tool that appends --retroarch to the
command line options of games for the NES Mini and SNES Mini for devices
modded with Hakchi2 that contain
retroarch-clover app.
The Hakchi2 tool in no way provides a way to automate the configuration
of games to use retroarch, this does just that as the alternative is to
manually append --retroarch to each and every game individually.
This works for both Windows and Linux, the latter of which Hakchi2 does not support, however a Hakchi2 modded console is discoverable on Linux as a standard block device so you can add and patch games from a Linux rig with this tool too.
The tool is safe to run multiple times (it won't patch games that have already been patched.) So you can add and remove games without having to start clean each time.