@phaedrux you are amazing, I had to invert them to get them to work correctly but it is now doing what it should. I am going to leave it like this for now so I can use it whilst looking into the updates you have listed. I will back everything up now so I can have a play with the firmware in a few days time.
If only I had known how easy it was to configure the endstops I would have added them when I built this.

Thank you once again for your help I'll try not to wreck it all now when I do the firmware upgrade.

@phaedrux you are amazing, I had to invert them to get them to work correctly but it is now doing what it should. I am going to leave it like this for now so I can use it whilst looking into the updates you have listed. I will back everything up now so I can have a play with the firmware in a few days time.
If only I had known how easy it was to configure the endstops I would have added them when I built this.

Thank you once again for your help I'll try not to wreck it all now when I do the firmware upgrade.

@phaedrux Thank you, I will try and get my head around it all over the next couple of days. Do you think I should try the M574 X1 S1 P"xstop" you said about first and if it works back it up like that rather than just backing up my config without the endstops being configured?

@phaedrux You are a star. I will start looking at the firmware tomorrow, like I said it's been a very long time since I built this and even then I was following a youtube tutorial. I was hoping it would all come back but alas I'm just another beginner starting over lol.

@phaedrux Thanks, I think I am nearly there. I have now defined the endstops but can not get them quite right.
They are Makerbot mechanical, I have added this to my config.g
M574 X1 S1 P"!io1.in"
M574 Y1 S1 P"!io1.in"
but it seems this isn't quite right as they show not hit but do not change when pressed whereas if I change it to
M574 X0 S0 P"!io1.in"
M574 Y0 S0 P"!io1.in"
They show hit and when pressed changes to No. Clearly I need to invert them but once again I am lost as I only stumbled across these settings by chance.
I have the endstops plugged into Ystop and Xstop respectively, this is my firmware and I am hoping to use the endstops at 0,0 which is front left of my machine.

Firmware Name: RepRapFirmware for Duet 2 WiFi/Ethernet
Firmware Electronics: Duet WiFi 1.02 or later
Firmware Version: 3.0 (2020-01-03b3)
WiFi Server Version: 1.21
Web Interface Version: 1.22.6

@phaedrux I have uploaded my config.g file in the hope this will help. I'm sorry to be a pain but it's been so long since I set it up I have forgotten everything, even to the point it took me 2 nights to change the wifi settings due to not remembering you need 2 apostrophes in replacement of 1.Config.g

@phaedrux Thank you for responding to me, It is late here now but I will let you know tomorrow when I get home from work if that is ok.

I built my MPCNC a few years and managed to set up my Duet wifi2 for basic operation. I would now like to start using endstops on the X and Y axis just to get 0,0. I have set up my endstops on the machine but I can not work out if I can easily configure the endstops now without reflashing the firmware onto the board.
Any searching I have done seems to show everybody else is now running dual endstops so I am not sure how I go about just using the standard two, one per axis. Could somebody please point me in right direction on how to enable the 2 I have set up.

Many Thanks.