Background: Congenital anomalies, affect millions of babies worldwide with a prevalence ofrn3% and it is estimated that, globally, 303,000 newborns die within the first 4 weeks of life due torncongenital anomalies. In Ethiopia, there are a number of babies are born with congenitalrnanomalies; however, a few studies have been studied regarding the prevalence and risk factorsrnfor the anomalies. Objective: The main objective of this study was to assess the prevalence ofrncongenital anomalies and associated factors among newborns in Bishoftu general hospital,rnOromia, Ethiopia. Methods: descriptive retrospective crossectional study was employed. Therndata entry and analysis was conducted by using SPSS version 24. Categorical variables werernsummarized as proportions and were compared using Pearsonâ€™s Chi square test, Crudern(unadjusted) and adjusted odds ratios were calculated to quantify the strength of associationrnbetween the factors and congenital anomalies. The 95% confidence intervals were determinedrnand the factors with a p-value of less than 0.05 were considered to have a significant associationrnwith congenital anomalies. Result: Out of 2218 live births 23 newborns were diagnosed withrncongenital malformations, making the prevalence rate of 1% per 100 live births. The mostrncommon prevalent types of congenital anomaly were anencephaly (30.4%).Maternal age abovern35(AOR =6.5, 95%CI = (2.4-18), P value= 0.001),birth order above 3(AOR=8.4; 95%CI=3.420.7;rnPrnvaluern=0.001),rnbirthrnweightrnlessrnthanrn2.5(AOR=0.3;95%CI=0.1-0.9),Prnvalue=0.037)rnrnandrnrnsingletonrnrnpregnancy(AOR =6.4;95%CI =2-18.9,P value =0.001) had a significant associationrnwith the occurrence of congenital anomalies, whereas maternal use folic acid duringrnpregnancy(AOR=0.036; 95% CI =.0.008-0.15;Pvalue=0.001) had a protective effect againstrncongenital anomalies. Conclusion and recommendation: Congenital anomaly is common and rnaccounts for 1 %( 10/1000 live births) in Bishoftu general hospital and anencephaly is the most rnprevalent type followed by hydrocephalus and spinal bifida. Large community-based studies inrndifferent geographical, environmental and socio-economic settings should be conducted inrnEthiopia to determine the prevalence of congenital anomalies and their associated factors.