The invention relates to the technical field of wastewater treatment, and discloses a pharmaceutical wastewater treatment process which comprises steps: preforming wastewater pre-treatment and comprehensive treatment, pumping wastewater into a coagulation gas floatation clarifier, adding polyaluminum chloride and polyacrylamide in a water input pipeline through a coagulation medicine adding system, then enabling mixed wastewater to enter a three-phase catalytic oxidation tower, a coagulative precipitation tank, a pre-acidification pool, a thermoregulation pool, a UASB reaction pool and a combined type hydrolysis acidification pool sequentially, subjecting the mixed wastewater to hydrolysis acidification, enabling the wastewater to enter a primary A/O pool, a primary precipitation pool, a secondary A/O pool, a secondary precipitation pool, a Fenton oxidation pool and a tertiary precipitation pool sequentially, and discharging standard outlet water from a standard discharging opening. The process has the advantages of stable running effect, high ammonium-nitrogen removal rate, and low running cost, thereby being suitable for treatment of wastewater, which is refractory to degrade, in the pharmaceutical industry.