I just installed a new z axis and have noticed that when probing with z- it goes up and z+ it goes down. I did have to do a bit of rewiring at first yet I thought I had it wired right. In the photo, I have black with black, green with green, Blue with white (had to use white wire to extend the blue), and red with red.
My settings
$132=100.000
$131=790.000
$130=790.000
$122=100.000
$121=500.000
$120=500.000
$112=1800.000
$111=8000.000
$110=8000.000
$102=50.059
$101=39.900
$100=39.950
$32=0
$31=0
$30=1
$27=1.000
$26=250
$25=750.000
$24=25.000
$23=3
$22=1
$21=0
$20=0
$13=0
$12=0.002
$11=0.020
$10=115
$6=0
$5=0
$4=0
$3=0
$2=0
$1=255
$0=10