Methods, systems, and apparatus, including computer programs encoded on a computer storage medium, for optimizing a manufacturing process. In one aspect, the method comprises repeatedly performing the following: i) selecting a configuration of control settings for a manufacturing process, based on a causal model that measures causal relationships between control settings and a measure of a success of the manufacturing process; ii) determining the measure of the success of the manufacturing process using the configuration of control settings; and iii) adjusting, based on the measure of the success of the manufacturing process using the configuration of control settings, the causal model.