MLSS Kraków 2025 is a summer school providing a didactic introduction to a range of modern topics in Machine Learning and their applications for Drug and Materials Discovery, primarily intended for research-oriented graduate students. The school features a line-up of internationally recognized researchers who will talk with enthusiasm about their subjects. Our goal is to provide a unique opportunity to learn from and connect with the leading experts in the scenic setting of the historic city of Kraków, Poland. This school is the next edtion of MLSS^S 2023 and MLSS^N 2022.