This paper is concerned with making 3D scans of semitransparent ambers with and without inclusions. The paper presents results of using a variety of devices applied for this purpose. Equipment used in the experiments includes a 3D laser scanner, a structured light scanner, a stereo camera, a camera array and a tomograph. The main object used in the experiment was an amber with a fossil of a lizard. The paper shows possibilities of acquiring the 3D structure of fossils embedded in semitransparent material which interfere with the measurement performed by 3D scanning equipment. Moreover, the paper shows the application of results of 3D scanning as the 3D scan of a lizard was reconstructed in a virtual reality cave making it possible to visualize in detail its shape and texture