Quote Originally Posted by printbus View Post
The fact that the Repetier moves appear to be correct suggest there's a problem accelerating/decelerating the Z axis. The Z numbers in your parameters seem conservative to reasonable for an i3 with M5 z-rods. Do you have EEPROM enabled? If so, maybe the EEPROM settings are more aggressive than what is in your configuration.h file.
Hi printbus,

I am using the EEPROM, but the settings there are the same. I refreshed them after upgrading Marlin and verified in Repetier that they were correct. I use the EEPROM settings for temporary testing of stuff like e-steps, but once I like a setting, it moves to the Configuration.h as well.

Bruce