Planting tomatoes in enclosed facilities requires manual pollination assistance. Chemically-assisted pollination poses environmental pollution and food safety hazards. Contact vibration pollination is inefficient, ineffective, and prone to plant damage. This study developed a non-contact tomato pollination device based on pulse airflow, and conducted an experimental investigation on it. Firstly, a non-contact tomato pollination device based on pulse airflow was designed, based on the reciprocating motion of tomato flowers under the action of pulse airflow. Subsequently, this study took the coverage rate of pollen on the stigma as an indicator, and the optimal pulse airflow parameters were determined, which were a velocity of 1.22 m·s⁻¹, airflow angle of −19.69°, and pulse frequency of 25.64 Hz. Finally, comparative experiments were conducted between the pollination effect of tomatoes based on pulse airflow and other assisted pollination methods. The results show that tomato flowers produce a composite reciprocating vibration under the coupling effect of the inflorescence elastic force and the pulse airflow force, and the coverage of pollen on the stigma is 11.2% higher than assisted pollination using stable airflow. The use of a pulse airflow pollination method can increase the fruit setting rate by 13.21%, increase the weight per fruit by 11.46%, and increase the weight of fruits per bunch by 33.33%. Compared with chemically-assisted fruit setting, no chemical agents were used to ensure a fruit setting rate similar to chemical methods, and the number of seeds per fruit increased by 74.8. Compared with vibration pollination, it eliminated plant damage and increased the fruit setting rate by 4.45%, and improved efficiency by 18.6%. The results indicated that the pollination method based on pulse airflow is environmentally friendly, high-quality, and efficient. This study breaks through the theoretical and parameter limitations of traditional airflow pollination devices, and provides a theoretical base for the development of clean pollination equipment in facility agriculture.