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That's right, you can't drive a stepper motor from the I/O pins, even small ones.
It should be possible to use a SammyC21 and 2 or 3 stepsticks to drive some additional small motors.
As that would max out a Duet WiFi, you might want to consider using a Duet 3 instead. Depending on the time scale, that might also allow you to use tool boards, simplifying the wiring.
@technosworld said in Mosfet issue, E0 heater heats up on startup, E1 blows fuses:
Does each E0 and E1 heater have a separate mosfet?
Yes.