What firmware does it use? Repetier-Host supports open source reprap firmwares like Repetier-Firmware, Marlin, Smoothieware. But smoothieware has some issues with multiple extruders as they handle extruders different.
Then that might be the problem if it is not reprap compatible. Do they advertise it should work or do they want to force you using their solution? In first case your parameter might just be set wrong.
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