We have seen animation studios like LAIKA use 3D printing technology to create their characters, even the weapons on Men in Black 3 were created using Objet printers.
The link below will bring you to a video that illustrates how a Dutch company uses 3D printing for their animation shorts. This was commissioned by advertising agency Kesselskramer, produced at Nexus Productions, and was made in collaboration with model maker / sculptor Jethro Haynes. The apples and core models were built using 3D printing technology in order to maintain the logo shape.