I double checked my impedances, and found nothing negative, everything looks to be properly entered into the program.
I didnt add any new three winding transformers, though I did add two new two winding transformers. And when I take the new portion of the circuit I added out of service, the X/R returns to a positive value...
Could small enough X values added in parallel create a negative X/R? Meaning, Or maybe the phase angle is causing this, since this is a complex value of the impedance as seen by the fault?