I tried running the script today. Bit of brief history here, I purchased this CNC and am trying to set up the mach 3 myself. Whenever I tried to use the remote control that has a probe macro whenever the tool hit the plate it gave an e-stop.

I put the code in for the Auto tool zero to try it from Mach3 screen. The code half worked and it registered that the touch plate is 12.0mm thick (which it is) once. Ever since then it is just giving an e-stop message. I tried an auto pin check to see if I had the right pin allocated for the probe as I was told to set it to pin 7 by the manufacturer. Mach thinks it should be 10. I checked to see what else was allocated to pin 10 and of course it is the e-stop. So can I sort this via the software or will I have to change a wire position in the break out board or elsewhere? I have a feeling that the probe and all the limit switches are wired together. Is this the correct configuration?

I tried to find out via the Mach manual but I am struggling a bit if I am being honest.

You just go into Config > Ports and Pins, and assign the proper pin #s to trhe inputs you're using. You shouldn't have to move any wires.

But, you can't have the limits and probe on the same input. You'd trip the limits when the probe activated. The Probe needs to be on it's own pin.

Thanks Ger, I will put it back to pin 7 then. I was getting an e-stop when using pin 7 as well which is why I ran the automatic pin check. I suppose it makes sense that it would find pin 10 having re-read the manual and that all the limit switches can be wired together. I must be missing something in my settings. Finding the problem is the problem!

Would having it at active high / active low make a difference?

The Probe won't work on Pin 7. If you look at the bottom of the Input Pins page, it says that you can only use pins #10-13, and #15.
Pin #7 id output only.

And yes, active high low makes a difference.

You make a good point, that did not occur to me as I was blindly following instructions. So if the software finds pin 10 for the touch probe but I can't use it as the other limits are on it how do I choose the correct pin...?

I am so close to getting this thing working it is driving me mental!

You need to move the touch plate (or limits) to another pin.

So I can just check which pins are not already allocated and select a free one (provided it is in the range given for inputs)?

Yes.

I notice that when I watch other videos zero in, when the grounded bit touches the positive plate, the bit stops and rises 1 inch and stops again.
On my diagnostics (Alt 7) section, one of the center top of port 1 pins remains lit until i lower the the grounded bit to the positive plate then the light goes out but router keeps going down until the limit switch is activated. Prior to testing the zeroing, the probe was automated set to 1-13 the only free space with out a problem. Any help will be  appreciated. Eli

Hi Eli,
This is the different script that I found online that was working with a G540. I have sent it as a PDF so that you can print it out. I also have found the manual for your G540 which didn't help much about Z Height.
Sorry I'm not much help.  You really need someone that has a lot more knowledge.
I will always Try to help but am just learning myself.  Please see my PM to you.