Z height zeroing 3mm above switch and build plate while homing

I recently updated my firmware to get my printer going. I am using a Prusa with MKS Base 1.2. when homing Z height moves to the limit switch twice then moves about 3mm above at the end of homing. Z offset is set to zero in slicer and configuration H.

Anyone have any ideas what this could be?

Thank you.

what does #define Z_MIN_POS say in your config?

Quote
Dust
what does #define Z_MIN_POS say in your config?

Config.h

#define Z_MIN_POS 0

I've tried setting the minimum position at -2.5. It appears not to have to do with the final homed position. When MIN_POS is less than 0 it seems to move past the point when the limit switch is triggered and still completes homing in the same position.

I've considered creating a custom gcode start for this machine. not sure if it will work though. The gcode reads correctly and when I look at the commands in Repetier-Host it appears to be executing correctly.
When the machine is moving up after triggering the limit switch it appears to me making two different moves in Z. Like a short deceleration/acceleration.

Any help would be greatly appreciated.

What firmware are you using ?