The invention provides a manifold type micro-channel heat sink with a boss-like structure. The manifold type micro-channel heat sink comprises a micro-channel layer, a liquid separation layer and a liquid inlet layer, wherein the liquid separation layer is provided with an S-shaped manifold type liquid separation flow channel, a liquid inlet channel and a liquid return channel are separated, the outlet of the liquid separation layer is connected with the inlet of the micro-channel layer, after a cooling liquid enter the liquid separation layer through the liquid inlet layer and then is fed into the micro-channel layer through a manifold flow division structure, the cooling liquid enters each micro-channels through manifolds, heat exchange between fluid and crystals is completed in the micro-channels, then the fluid upwards enters a liquid return manifold through the flow path, and the cooling task is completed. According to the invention, the problem that the heat sink heat dissipation surface is low in temperature due to a manifold micro-channel heat sink micro-channel inlet impact area is solved through the ball-convex-like structure, and the temperature of the low-temperature area is adjusted by adjusting the structure size of the ball-convex-like structure, so that the purpose of uniform temperature of the heat dissipation surface is achieved; and the heat sink liquid separation layer enables the flow cooled to reach each micro-channel to be uniformly distributed, so that the temperature uniformity of the heat dissipation surface of the heat sink is further improved.