Objective To investigate the value of application of pediatric sepsis biomarker risk model in diagnosis and treatment of pediatric sepsis related multiple organ failure. Methods A total of 355 cases of children with sepsis in our hospital from January 2014 to September 2016 were selected and detected their serum interleukin 8(IL-8), chemokine 3(CCL3), 70 kDa heat shock protein 1 B(HSPA1B), grain enzyme B(GZMB), matrix metalloproteinases 8(MMP-8)levels within 24 h. And sequential organ failure estimation score(SOFA score)at the same time was also evaluated. The classification and regression tree was applied in analysis and comparison of the above serum biomarker level and age<0.5 years rate and age≥0.5 years rate in children with SOFA score＜11.5 points or SOFA score≥11.5 points, so as to analyze the value of application of pediatric sepsis biomarker risk model in sepsis related multiple organ failure condition assessment. Results In 335 cases of children with sepsis, SOFA score＜11.5 points rate and SOFA score≥11.5 points rate were 88.45%(314/355)and 11.55%(41/355), respectively. According to the results of classification and regression tree analysis, sensitivity, specific, accuracy, positive predictive value and negative predictive value of pediatric sepsis biomarker risk model evaluating sepsis related multiple organ failure disease were high, thus the value of it evaluating sepsis related multiple organ failure condition was good. Conclusion Value of pediatric sepsis biomarker risk model evaluating sepsis related multiple organ failure condition is good, therefore, it may be used for the sepsis related to multiple organ failure diagnosis and condition assessment and guide the clinical treatment to improve the curative effect and prognosis.