In late February 2022, a wave of SARS-CoV-2 infection rapidly appeared in Shanghai as of May 4, 2022, and 601,942 patients were diagnosed with SARS-CoV-2 infections, including 503 deaths. All the new viral genomes in Shanghai were clustered into the SARS-CoV-2 BA.2.2 sublineage. Patients under 18 years old, including several patients with congenital heart disease (CHD), were admitted to the quarantine ward in Shanghai Children's Medical Center affiliated with Shanghai Jiaotong University School of Medicine during this outbreak in Shanghai. To the authors' knowledge, there have been no reports of Omicron variant infections among the pediatric CHD population. We presented the first single-center case series study of the clinical features of CHD children with Omicron infections.