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Please post in the CTC users group at https://groups.google.com/forum/#!forum/ctc3dprinters . My guess is that you did not follow the sailfish install directions and, as a result, need to wipe the EEPROM using the Utilties > EEPROM menu. Merely resetting to factory defaults will not work as it leaves all calibrations untouched and likely your X home offset and/or X toolhead offsets are wrong. (Covered in the install directions.) Also, incorrectly using the abandoned-in-2012 ReplicatorG 0040 to write EEPROM settings will corrupt the home offsets and toolhead offsets. You must use ReplicatorG 40r33 - Sailfish (a download of this Thing).