The invention relates to a nanoimprint device and method capable of preparing a super-hydrophobic microstructure. The nanoimprint method comprise the steps of firstly, evenly smearing imprint glue benzyl mercaptan palladium on the surface of a first substrate and the surface of a second substrate through a first gluing device and a second gluing device; then respectively imprinting the substrate Iand the substrate II by an imprinting device I and an imprinting device II to obtain a substrate I with a longitudinal grating structure and a substrate II with a transverse grating structure, and carrying out high-temperature treatment on the substrate I for one hour to convert the benzyl mercaptan palladium grating into a metal palladium grating; and separating the transverse grating from the substrate II under the action of an imprinting device III, adhering the transverse grating to the longitudinal grating to form a stacked structure, and performing high-temperature treatment for one hour to convert the transverse benzyl mercaptan palladium grating into a metal palladium grating, thereby obtaining the super-hydrophobic microstructure. According to the method, the super-hydrophobic microstructure is prepared by using roller-to-roller imprinting and a method of combining nano imprinting and chemistry, so that a composite structure can be easily prepared, the substrate is preventedfrom being taken and placed for multiple times, the preparation time and the alignment error are reduced, and the cost is greatly reduced.