Hood,
Based on your observations and my reviewing my setup, I have made some changes.
Input Signals:
Probe remains as you found it. That is for my Zero Touch Plate.
E Stop - I am using Pin 10 instead of Pin 14.
THC ON - I have disabled this input.
OutPut Signals:
No change OutPut #2 and #4 are active.
Spindle Relay Control:
M3 Remains as Output #2 Active
M4 is a Mach default value Output #1 is inactive.
Flood Mist:
M7 Remains as Output #4 Active, I turn my laser on for my X,Y location macro.
M8 is a Mach default value Output #3 is inactive.
I have tested these changes and things are still working.
Thanks for the suggestions.