The invention relates to a special-shaped three-dimensional knitted fabric and a manufacturing method thereof, which relate to the knitted fabric. The special-shaped three-dimensional knitted fabric with at least one of an upper surface and a lower surface being a concave-convex special-shaped curved face, and favorable air permeability, support performance and shearing resistance, and the manufacturing method thereof are provided. The special-shaped three-dimensional knitted fabric comprises an upper fabric layer, a middle fabric layer and a lower fabric layer, wherein the upper fabric layer or / and the lower fabric layer is / are provide with a concave-convex curved face(s) in a knitted longitudinal direction(s); and the middle fabric layer is formed by connecting yarns with flexural rigidity. According to a fabric structure and a texture requirement, required materials of the upper fabric layer, the required lower fabric layer and the middle fabric layer are selected; according to structural features of the fabric, the yarns are sewed on a guide bar; according to special-shaped structural features of the fabric, warp run-in of the fabric is set, and a distance between two needle beds can be adjusted in real time when the fabric is knitted in different horizontal lines according to variation in thicknesses of the different horizontal lines of the fabric; and a drawing device draws the knitted textile from the needle beds when knitting is carried out simultaneously.