An assessment engine includes a definition of inquiry skills being assessed. Assessment models are used to infer skill demonstration as one or more students engage in inquiry within computerized simulations and/or microworlds. A pedagogical agent and/or help system provides real-time feedback to one or more students based on the assessment model outputs, and/or based on additional models that track one or more students developing proficiency across inquiry tasks over time. A pedagogical agent and/or help system for science inquiry tutoring responds in real-time on the basis of knowledge-engineered and data-mined assessment and/or tracking models.