Nikon D750 has a
24.0MP Full frame (35.9 x 24 mm ) sized CMOS sensor and features Expeed 4 processor. On the other hand, Fujifilm X-Pro3 has a
26.0MP APS-C (23.5 x 15.6 mm ) sized BSI-CMOS sensor and features X-Processor 4 processor.
One other difference between these two cameras that is worth mentioning is that Fujifilm X-Pro3's sensor doesn't have an anti-alias (Low-Pass) filter. Removing anti-alias filter increases the sharpness and level of detail but at the same time, it increases the chance of moiré occurring in certain scenes.
Below you can see the D750 and X-Pro3 sensor size comparison.
As seen above, Nikon D750 has a 2.4x Larger sensor area than Fujifilm X-Pro3. Larger sensors give photographer more control on the depth of field and blurry background compared to smaller sensor when shot in same focal length and aperture.