Scanning electron microscopy (SEM) enables the analysis of surfaces of various materials, including eukaryotic cells. The ability of cells of various body tissues to attach and grow on the surface of implantation materials is an important characteristic of their biocompatibility. SEM visualizes how cells adhere to the surfaces. However, sample preparation for SEM analysis traditionally requires extensive dehydration and the use of toxic osmium tetroxide. This study aimed to optimize the process of preparing animal cells grown on the surface of bioceramic samples for SEM analysis. We propose a new SEM analysis preparation method for mesenchymal stem cells derived from human adipose tissue cultured on the surface of three types of bioceramics. The method includes fixation with aldehyde, alcohol dehydration, staining with Giemsa dye, drying, and gold spraying. We also propose an algorithm for detecting cells attached to the surface of a porous and rough material. This approach accelerates the preparation of cells for SEM analysis and eliminates the need for highly toxic reagents.