Infectious bovine keratoconjunctivitis (IBK) commonly known as pinkeye is a contagious non-fatal bacterial infection of the eye that has tremendous economic impact on the dairy industry. Nevertheless, it is a much-neglected dairy issue in Pakistan. The current study was aimed to find out the prevalence and risk factors associated with pinkeye infection in commercial dairy herds in Pakistan. This study recruited 10,573 cows in 20 commercial dairy herds holding ≥25 cows per herd. The cows were assessed based on eye lesions using a scale from 1 to 4, with 4 being the most severe of all. Culture of subconjunctival swab samples was also undertaken. The overall prevalence of pinkeye was 6.86% with Holstein-Friesian breed being the most affected (7.25%) followed by crossbred (6.89%) cattle. Cow hygiene and farm hygiene scores were indirectly related to the prevalence of pinkeye. Prevalence was also significantly (P<0.05) associated with seasons of the year, being highest in humid summer months while lowest in winter. The prevalence of pinkeye was significantly higher (<0.0001) in cows exposed to sunlight than unexposed ones. Cows on farms performing farm disinfection occasionally had 1.52 times higher odds of being diseased than cows on farms with once-a-week disinfection. Likewise, cows on farms using no fly control program had 2.8 times higher likelihood of pinkeye than those on farms having fly control program. In addition, prevalence of pinkeye was significantly higher (P<0.05) in cows with low body condition scores. It was concluded that Pinkeye is a significant health concern in commercial dairy herds in Pakistan and the risk factors influencing the prevalence of this disease may include cow hygiene, farm management practices, and the environment.