I run into issue and resolved it by inserting a command with Repetier firmware/Host combo, that it ignores the Z change command if Repetier host assumes that it is at same height.
When it starts printing my Repetier-Host (0.56) have Z=0.25 but after M114 command goes back to Z=15.
I inserted M114 before first layer and that updates Repetier-Host app with correct Z and probably the command with G1 Z0.254 isn't ignored
;LAYER:0
M107
M114 ; enforces Repetier-Host measurments update
G1 F9000 X59.083 Y60.883 Z0.254
Reposted from: [
forum.repetier.com]