Regular mathematical modelling of the dispersion of emissions from large sources is required by law in all EU countries. It is also used in risk analysis to predict releases of toxic substances from various technologies, from volcanic activity and possibly also terrorist acts. However, there is a shortage of experts in this very specific and demanding profession in the labour market in most EU countries. In a collaboration between academicians from neighbouring University of Hradec Králové and University of Opole and experts from important ecological companies of both regions we designed and verified as a part of a four-year pedagogical project supported by the EU a comprehensive education system in mathematical modelling of emission dispersion with exchange field trips and internships of students during cross-border Polish-Czech university education. The paper consists of two separate parts. The first part is focused on implementation of innovative lesson “Principles, algorithms, and differences of environmental dispersion emissions models”, used on both sides of Polish-Czech border region. An example of the use of the educational package of the Gaussian plume model with PC Templates, who was modified in cooperation between teachers from both cross-border universities and experts from professional companies is presented here too. Our four-year experience with student motivational field trips to professional companies in both border regions and exchange one-month professional internships for interested students to two Czech professional companies, where students learn to work with to the Gaussian plume model and one Polish professional company, where students are introduced to the Gaussian puff model is also discussed. The following separate second part will be focused on the innovative lesson of multivariate statistical methods of environmental data analysis, which are required for processing materials for modern mathematical modelling of the dispersion of emissions in practice. The target users of this two-part innovative courses are students of the MSc degree in Physical Measurement and Modelling at the University of Hradec Králové and students of the MSc degree in environmental studies at the University of Opole. However, it is also open to other Czech and foreign students and professionals.