The invention discloses a circuit board structure and a manufacture method thereof. The circuit board structure comprises a core board and at least one layer increase structure, wherein the surface of the core board is provided with a first line layer with a plurality of electric connection pads; and the layer increase structure covers the surface of the core board, and comprises a dielectric layer, a second line layer and a plurality of conductive blind holes. The conductive blind holes are electrically connected with the electric connection pads and the second line layer, and the surfaces of the second line layer and the conductive blind holes are leveled with the surface of the dielectric layer. The invention also provides a making method of the circuit board structure. The invention can effectively control the shape of a line so as to form a circuit board of a thin line, and can improve the electric function of the circuit board simultaneously.