In the intraoral scanner (IOS) impression technique for dental implants, a scanbody (SB) is connected to the implant and scanned. Poly(ether-ether-ketone) (PEEK) is a widely used material for SBs and it is recommended for single use. However, from the perspective of the Sustainable Development Goals, it is desirable to use these products multiple times. As SBs are used in patients’ mouths, proper sterilization is necessary for multiple uses. In the present study, the effect of autoclave treatment and connection/disconnection on SB deformation was investigated. The SB was connected to the implant and stereolithography (STL) data were obtained. Then, the SB was disconnected and underwent autoclave treatment, or was connected and disconnected multiple times, or underwent a combination of both processes. The results showed that there were significant differences in the distance and angle when comparing SBs before and after the autoclave treatment, but repeated connections with or without autoclave treatment had no significant impact on the measured values. The surface texture, observed with scanning electron microscopy, showed that a groove was observed on the surface of the SB, but the groove did not show major changes after 10 connection/autoclave processes. These results indicate that autoclave sterilization has some impact on SB deformation but connection/disconnection itself may not have a huge impact on SB deformation.