Oh right the upload issue. I also had this, or maybe something similar when updating to 3.1.6. After submitting the config the flash began and never stopped. Minutes later the farmbot connected to the webapp and I had no connection to the Arduino. I’ve noticed that the led on ramps didn’t turn off after flashing the firmware to Arduino, it just got stuck in the process every time. Uploading the firmware directly to Arduino didn’t work, insufficient space was shown as an error.
So I asked Google and found out a “temporary” fix which worked out pretty decently.
While uploading the firmware to Arduino you need to push the reset button on Arduino just in the right moment. Worked after a few tries and the bug didn’t came up anymore even after many reflashes.
But it’s great that you’ve got your farmbot running again 