Objective To compare the clinical efficacy and safety between endoscopic high-frequency electrotomy with argon and endoscopic mucosal resection (EMR) in the treatment of gastric polyps. Methods A total of 90 patients with gastric polyps were selected as the study subjects and randomly divided into group A (n=45, 91 polyps) and group B (n=45, 94 polyps). Group A was treated with endoscopic high-frequency electrotomy with argon, and group B was treated with EMR. The clinical efficacy, perioperative indexes, incidence of adverse reactions within 7 days after surgery, and serological indicators before surgery and 7 days after surgery were compared between the two groups. Results The total effective rate of treatment and the 1-time polyps resection rate in group A were higher than those in group B, while the intraoperative blood loss, operation time, and length of hospital stay were less/shorter than those in group B, and the incidence of adverse reactions within 7 days after surgery was lower than that in group B (all P<0.05). Seven days after surgery, the levels of pepsinogen I and gastrin-17 in the two groups were higher than those before surgery, the abovementioned indexes in group A were higher than those in group B (all P<0.05), but there was no statistically significant difference in the pepsinogen Ⅱ level between the two groups (P>0.05). Conclusion Compared with EMR, endoscopic high-frequency electrotomy with argon can treat gastric polyps more effectively, with higher safety, less damage, faster gastric mucosal repair, and shorter postoperative recovery time.