Beta-blockers are commonly used during the first trimester of pregnancy. Data regarding risks of congenital anomalies in offspring have not been summarized. We performed a meta-analysis to determine teratogenicity of beta-blockers in early pregnancy. A systematic literature search was performed using PubMed, EMBASE, Cochrane Clinical Trials, and hand search. Meta-analyses were conducted using random-effects models based on odds ratios (ORs). Pre-specified subgroup analyses were performed to explore heterogeneity. Randomized controlled trials or observational studies examining risks of congenital malformations associated with first trimester beta-blocker exposure compared to no exposure were included. Thirteen population-based case-control or cohort studies were identified. Based on meta-analyses, first trimester oral beta-blocker use showed no increased odds of all or major congenital anomalies (OR = 1.00; 95% CI: 0.91 – 1.10, five studies). However, in analyses examining organ-specific malformations, increased odds of cardiovascular (CV) defects (OR = 2.01; 95% CI: 1.18 – 3.42; 4 studies), cleft lip/palate (CL/P) (OR = 3.11; 95% CI: 1.79 – 5.43; 2 studies) and neural tube (NT) defects (OR = 3.56; 95% CI: 1.19 – 10.67; 2 studies) were observed. The effects on severe hypospadias were non-significant (1 study). Causality is difficult to interpret given small number of heterogeneous studies and possibility of biases. Given the frequency of this exposure in pregnancy, further research is needed.