Polymer coating by cold-spray presents interesting features such as the possibility to protect metallic substrates or to add functionalities to a structure. However, it is characterized by a low deposition efficiency and a weak interface between the substrate and the coating. In this study, we performed fluoropolymer coatings by the cold-spray process. Analysis of the particle deposition during cold-spray highlighted the importance of the particle size, substrate temperature, and inlet gas temperature and pressure on the adhesion polymer/substrate. The addition of hydrophobized fumed nano-ceramics (FNC) to the polymer feedstock enhances the deposition efficiency and polymer adhesion on the substrate. The addition of fumed nanoalumina (FNA) to the polymer feedstock tends to give better results than fumed nano-silica in terms of deposition efficiency thanks to (i) the difference of surface charge leading to the attractive force between the polymer and the FNA during the powder preparation stage, and (ii) a homogeneous repartition of the FNA on the polymer particle surface. In addition, the hydrophobization of the FNC maintains and enhances the hydrophobicity and water repellency properties of the fluoropolymer coating.