Impact of fabrication history induced disorder on Josephson junction reproducibility and qubit performance

Reproducible Josephson junction (JJ) characteristics are essential for frequency-deterministic and scalable superconducting quantum processors. We show that the normal-state resistance and its reproducibility in Al/AlOx/Al JJs are governed not by oxide thickness, but by fabrication-history–induced disorder in the tunneling barrier. By comparing junctions fabricated on bare wafers, lift-off–processed base layers, and dry-etched base layers under identical oxidation conditions, we observe large differences in resistance and wafer-to-wafer variability. Atomic force microscopy reveals distinct surface disorder imprinted by prior fabrication steps, while cross-sectional transmission electron microscopy show that the average AlOx barrier thickness is comparable across the three fabrication histories within experimental uncertainty. The enhanced resistance on rough, plasma-damaged surfaces therefore originates from nanoscale barrier disorder rather than thickness variations. These results establish fabrication history as a key determinant of JJ barrier quality and highlight the need for holistic process control to achieve deterministic qubit frequency targeting.