RatOS configuration sets wrong pins for 2240 drivers

RatOS 2.1, board: Manta M8P + pi CM4 compute module with eMMC, BIGTREETECH TMC2240 V1.0 steppers. The SPI pins set by the RatOS configurator are wrong and cause error when attempting to move any axis. The makeshift solution is to overwrite the pins in printer.cfg The order of changes that got me this problem was as follows: Change board to Manta M8p 2.0 with standard 2209 steppers -> change steppers to 2240 and bridge the correct SPI pins on the board -> go to configuration and change the steppers there. I have read in some other thread that someone had similar error and fixed it by switching the steppers around, I will test that later as it would point to the system not updating the settings correctly until it detects stepper.