Implication is Batocera is not a “set up your arcade hardware” suite but instead a retro-gaming OS. If your arcade hardware requires specialised software (which may have a lot of dependencies) to run and configure it then that is outside of the scope of Batocera.
If your arcade hardware manufacturer offers a flatpak of that software, it should be possible to install that into Batocera and use it to configure your hardware. But I imagine that might have problems of its own if the software requires low-level access to the hardware to configure it.
Basically, Batocera is not modular enough to accomodate all sorts of specialised hardware, especially ones that the devs wouldn’t have. But if you want to, you could see how easy/difficult it would be to compile the software into Batocera and run your own version (maybe even make a PR if the drivers are light enough). For instance, this happened with the Pixelcade Marquee display on the v33 patch.