Use 1 connector per motor, print your wiring convention, laminate it and stick it under the box.
If you ever have a motor, driver or other axis fault you'll bless yourself for giving you the opportunity to easily swap X, Y, Z or A to Y, Z, A or X to identify the fault, using 2 pins per motor connection will halve the connection resistance and halve the current through each pin which can never be a bad thing,
ATB,
Nick