One minor change I just figured out to my stepper motor to Arduino project from before, in relation to the wiring for the reset portion of the circuit. I was having issues with programming these, once the Arduino firmware was on. They wouldn't always reset properly when sending down new firmware via the Arduino interface. I just looked at the circuit for the Arduino itself, and realized that a 10kΩ pullup resistor was missing from the circuit.
the daisy chained serial project need to have the 10kΩ resistor added for proper functionality. The resistor is essentially tied from +5 volts to the reset pin, pin 4 of the D15 connector. It's a cheap and easy fix, which lets these things work oodles better!