The aim of this study was to study the components of the internal control-based administrative system in secondary schools, and make a Confirmatory Factor Analysis (CFA) to confirm the goodness of fit of empirical data and component model that resulted from the CFA. The study consisted of three steps: 1) studying of principles, ideas, and theories in related documents, 2) synthesizing and specifying them as components of the system, and 3) proposing these components to experts in the field for their confirmation on the appropriateness as components. Sample groups for the CFA comprised three groups with 300 samples i.e. 100 school directors, 100 school deputy directors, and 100 school teachers. A package program was applied to analyze collected data for mean, and standard deviation. Evaluation of the goodness of fit of the CFA Model was done by Chi-square, CFI, TLI, RMSEA and SRMR. Research results revealed that there were four components of the system i.e. Inputs, Process, Outputs, and Feedback. The Inputs comprised four components: 1) administrative resources, 2) learners, 3) administrative tasks in schools, and 4) policies, ideas, and directions on school administration. The Process comprised five components: 1) control environment including seven subcomponents, 2) risk assessment including five sub-components, 3) control activities including seven sub-components, 4) information and communication including six sub-components, and 5) monitoring including three sub-components. The Outputs were considered from two results i.e. 1) school quality basing on the Thailand National Basic Education criterion, and 2) satisfaction of related people in the system. The Feedback data received was from school internal-control evaluation, and CFA results. It was found that the model had a good level of goodness of fit to empirical data when considering the goodness of fit index.