I'm using both the X-Pro1 and the X-T1, and aside from the obvious differences you can readily see from the camera specifications, the most relevant difference in firmware to me is the fact that the X-Pro1 doesn't have the Focus Check function. On the X-T1, this function automatically kicks in if you use the AF+MF function and turn the focus ring (obviously, you need to use the camera's EVF for this). It then automatically magnifies the contents of the AF frame.
On the X-Pro1, you can use the AF+MF function, but you don't have access to screen magnification since AF+MF is only available in AF-S mode. If you need screen magnification for critical focus checking, you need to move over to MF mode, in which you can press the control wheel to have the contents of the AF frame magnified.