I think this refers to something different. Stepper motor systems have a pretty nasty resonant-frequency problem, because the stepper motor's torque generation mechanism is effectively a virtually undamped spring, so you get a strong resonant action at a frequency of sqrt(k/J), where k is the effective spring constant, and J is the total moment of inertia of motor and load. (This occurs even with a perfectly stiff coupling, by the way. A compliant coupling can introduce a second resonant frequency.)
If you input a step pulse frequency to the drive at around this resonant frequency, the motor can oscillate pretty wildly and lose synchronism. This can even occur if you are ramping the pulse frequency through this resonant frequency.
For this reason, some stepper indexers and smart drives permit you to set a starting frequency, so you can start above the problem frequency. Rather than ramping to full speed from zero, as a servo system would typically do, there is a velocity step to this frequency followed by a ramp to the full frequency of the move.
Of course, the velocity step creates its own problems, as it is a request for infinite acceleration, so you have to be careful with this.
Curt Wilson
Delta Tau Data Systems