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This study aimed to determine the effect of the application of contextual-inquiry based worksheets on students scientific process skills in the sixth semester of biology education undergraduate students in FMIPA UNIMED. This study used a quasi-experimental method with one dependent variable with 3 (three) classes as sample which are determined by random class. Regular class A got the treatment of applying contextual inquiry worksheets, Extension class A got the treatment of applying PBMP worksheets (empowering thinking through questions), Extension class B (control) got treatment for applying conventional worksheets. The research instrument was a list of description questions to test scientific process skills. Data analysis techniques used covariate analysis (ANACOVA) at a significant level a = 0.05 with SPSS 23 for Windows. The results showed that there was a significant effect of among the scientific process skill results, namely inquiry-based worksheets, contextual PBMP, conventional on with F = 4.364, P = 0.016. The results of this study stated that contextual inquiry worksheets can improve students scientific process skills.