OK!

So far so good! Everything works, and my motors are roughly tuned, and are repeating to about a .001".
Spindle works clockwise, and counter clockwise, and i tuned the spindle RPM to where its within a few rpm of actual!
I think what did it, was that i enabled the parallel port under BIOS. Even though its not "onboard" the motherboard, it must control the PCI devices?
It gave me the option of output only, bi-directions, EPP or ECP. I left it at ECP and it works.
My limits and E stop switch now work too, and it also homes itself!! Yay!
Uploaded the newest .XML for the 3503 KX3 incase anyone needs it in the future. Sieg's tech support wouldn't even send me the current .xml file, little machine shop came through as usual and provided an amazing response time, and all the files.
I'll continue to update and tune the machine, and also upload and edit the .xml incase anyone else is in need.
Thank everyone.
DiyE