@Moonshiner Yes, it's not in the DTS
If you want to make the change when the device boots, you can use omega2-ctrl to change the pin multiplexing. See the ephy group here http://docs.onion.io/omega2-docs/using-gpios.html#using-gpios-multiplexing
However, if you're using a more recent version of the bootloader, GPIO43 should be set to act as a GPIO by default. Learn more about checking your bootloader version, the bootloader changelog, and updating it here: http://docs.onion.io/omega2-docs/Web-Recovery-flash-bootloader.html