Setting up limit switches and a bunch of other things

Doesn't make sense to me the ESTOP is killing power to the board itself just fine when plugged into pin 10. But, I will give this a go. Be right back.

EDIT:

DING! DING! DING! We have a winner.  All of the limit switches and probe switch red to green fine, pin 10 does not register anything in either jumper setting. I have no spare input pins, and would have use the touch probe pins. Instead I'm going to leave it alone and just use it as a hardware killswitch it works fine to physically kill the power to the board. Plus I'm going to reinstall 2.8, auto-update teh hal files cause the wiki the wiki says that's a thing,  and see if all of this still works so that I can have easy GMOCCAPY back which is my current preference. 

Thank you everybody for putting up with me.  I really do appreciate it.