This qualitative realist evaluation of an electronic immunization registry (EIR) in 12 Kenyan health facilities found that while health care workers had high acceptability of the system, numerous barriers—including software bugs, poor network connectivity, staffing shortages, and dual data entry requirements—created a misalignment between the system design and real-world workflows. The study developed four practical rules for future digital health implementers, emphasizing the need for adequate training, system alignment with clinical workflows, and contingency planning for infrastructure limitations. The findings highlight that human-centered design must be applied both during pilot stages and after scale-up to ensure digital health interventions are suitable for all user settings.