there is no feed back from the stepper drivers to the micro controller. you can completely remove the stepper drivers and the controller will not notice (or care) (presuming standard polulu type drivers and not something with modern SPI control)
The issue is elsewhere.
I suspect you spiked the mega, and it is seriously damaged and needs replaced.
Could be anything, damaged ADC, dead timers... unlikely to just be dead IO pins.
Edited 1 time(s). Last edit at 01/14/2017 01:06AM by Dust.