Systems and methods for identifying clouds and cloud shadows in satellite imagery are described herein. In an embodiment, a system receives a plurality of images of agronomic fields produced using one or more frequency bands. The system also receives corresponding data identifying cloud and cloud shadow locations in the images. The system trains. a machine learning system to identify at least cloud locations using the images as inputs and at least data identifying pixels as cloud pixels or non-cloud pixels as outputs. When the system receives one or more particular images of a particular agronomic field produced using the one or more frequency bands, the system uses the one or more particular images as inputs into the machine learning system to identify a plurality of pixels in the one or more particular images as particular cloud locations.