Abstract: A metal separator for a fuel cell and a manufacturing method thereof are provided, in which a graphite carbon layer with a minute thickness is formed on the surface of a substrate, to improve conductivity. The manufacturing method includes preparing a metal substrate; loading the metal substrate into a chamber with a vacuum atmosphere; coating a graphite carbon layer by depositing carbon ions ionized from a coating source on a surface of the metal substrate; and unloading the metal substrate having the graphite carbon layer coated thereon to an exterior of the chamber.