The objective of this observational clinical study was to analyze the behavior of peri-implant tissues around cone Morse dental implants installed in the subcrestal bone position considering different clinical variables: Mucosal thickness, implant diameter, and implant length. Thirty patients were selected and included in the present study. Initially the thickness of the mucosa was measured by periapical radiographic and clinically (after the mucosal displaced). According to the planning for each treatment, implants with different dimensions (in length and diameter) were selected and used. Periapical radiographs were obtained at different times: Immediate postoperative (time t1) and 90 days after implantation (time t2). The initial stability of the implants (ISQ) was measured immediately of the implant insertion and 90 days after. The means and standard deviations of the ISQ values were in time t1 was 63.2 ± 6.99 (95% confidence interval (CI): 41 to 83) and in time t2 was 69.7 ± 7.09 (95% CI: 61 to 87). Overall mean of mesial and distal bone loss 90 days after the implantations were 1.11 ± 1.16 mm and 1.11 ± 1.15 mm, respectively. When the variables were considered, in all situations proposed, the bone loss showed differences statistically significant. In conclusion, the implant diameter and mucosal thickness variables showed an important effect on bone loss values. However, the implant length did not show an effect on the peri-implant behavior.