The study investigated the influence of metacognition on critical thinking skills. It is hypothesized in the study that critical thinking occurs when individuals use their underlying metacognitive skills and strategies that increase the probability of a desirable outcome. The Metacognitive Assessment Inventory (MAI) by Schraw and Dennison (Contemporary Educational Psychology 19:460-475, 1994), which measures regulation of cognition and knowledge of cognition, and the Watson-Glaser Critical Thinking Appraisal (WGCTA) with the factors inference, recognition of assumptions, deduction, interpretations, and evaluation of arguments were administered to 240 college students from different universities in the National Capital Region in the Philippines. The Structural Equations Modeling (SEM) was used to determine the effect of metacognition on critical thinking as latent variables. Two models were tested: (1) In the first model, metacognition is composed of two factors while (2) in the second model, metacognition has eight factors as they affect critical thinking. The results indicated that in both models, metacognition has a significant path to critical thinking, p<.05. The analysis also showed that for both metacognition and critical thinking, all underlying factors are significant. The second model had a better goodness of fit as compared with the first as shown by the RMSEA value and other fit indices.One of the aims of education is for students to think critically. In order to achieve this end, it is important to identify certain cognitive factors that can facilitate it. Critical thinking occurs when individuals use their cognitive skills or strategies that increase the probability of a desirable outcome (Black 2005;Halpern 1998;Kuhn and Dean 2004;Nickerson 1994;Schroyens 2005). Specifically, developing students' critical thinking skills is facilitated through metacognition. The relationship between metacognition and critical thinking was Metacognition Learning (2010) 5:137-156