Disclosed is a method of producing implantable prosthetic devices, e.g., tubular vascular prostheses having a substantially non-thrombogenic inside surface and a biocompatible outside surface. The method involves deposition onto an elongate substrate, e.g., a porous tubular substrate, of a fluorine-containing coating by inducing glow discharge progressively along the length of a tubular reaction vessel. A polymerizable fluorine-containing gas is flowed through the tubular substrate and a portion of the gas migrates radially to traverse the pores of the substrate. An RF field is applied to successive volumes of the gas within the vessel and tube. A substantially non-thrombogenic fluorinated coating with a first fluorine to carbon ratio deposits and bonds to the inside surface of the substrate, and a fluorinated biocompatible cross-linked coating with a lower F/C atomic ratio than the inside coating deposits and bonds to the outside surface of the substrate. The method of the invention can produce uniform coatings containing fluorine over the surface of elongated substrates. The coatings can be engineered to have a very low surface energy and to be essentially non-thrombogenic.