Objective To study the effect of application of disposable endoscope bedside pre-treatment kit on endoscope cleaning in pre-treatment link and the amount of cleaning solution in the cleaning tank during cleaning process, so as to explore feasible measures to improve the quality of endoscope cleaning and reduce the clinical cost. Methods 112 pieces of used gastrointestinal endoscopes were randomly divided into two groups (groups A and B), during pre-treatment process, group A used traditional pre-treatment barrel and group B used disposable endoscope bedside pre-treatment kit. During the cleaning process, each group was subdivided into two groups (groups A1, A2, B1 and B2). The cleaning solution in the cleaning tanks of group A1 and group B1 were replaced after several times of use, while group A2 and group B2 were replaced every time. The relative light unit value (RLU) and protein residue in the inner surface of endoscopic lumen before and after bedside pre-treatment as well as after cleaning were detected with adenosine triphosphate (ATP) bioluminescence method and nice check residual protein detection me-thod, cleaning effect of each group was compared. Results There was no significant difference in ATP detection value and mean protein residue between group A and group B before pre-treatment (both P > 0.05); the detection value of ATP in group B was lower than that in group A after pre-treatment (P < 0.05), and there was no significant difference in protein residue between group B and group A (P > 0.05). ATP detection values of group B1 and group B2 were both lower than those of group A1 and group A2 after cleaning (both P < 0.05), but there was no significant difference between group A1 and group A2 as well as group B1 and group B2 (both P > 0.05); there was no significant difference in protein residues among four groups (all P > 0.05). Conclusion Using a disposable endoscope bed-side pre-treatment kit for pre-treatment and adopting the mode of one time replacement for multiple use of cleaning solution in the cleaning tank during the manual cleaning process is the best choice for comprehensive clinical cost and cleaning effect.