Objective To study the prevalence of inherited metabolic disorders diagnosed at the Unit of inherited metabolic disease at Cairo University Children Hospital (CUCH), focusing on the wide variability of clinical presentations of these diseases as well as on the risk factors and demographic distribution. Methods 1289 patients were evaluated clinically at the neurometabolic unit from 2008 to 2010 with retrospective analysis of the data. Results Out of 1289 patients, 120 Patients were diagnosed as Phenylketonuria: 67 males (55.8%) and 53 females (44.2%), with age of presentation range (few days to 14 years). The remaining 1169 patients: 672 males (57.5%) with age range (1 week–18 years). Positive consanguinity was observed in 60.3% of patients. Excluding the PKU group: neurological manifestations were predominantly reported as 34.2% of clinical findings, non neurologic manifestations as 16.9%, dysmorphic/skeletal abnormalities and isolated short stature: 12.5%. Positive risk factors: 11.1%. Dermatological manifestations: 5.1%, ocular/auditory defects: 4.8%, failure to thrive: 4.7%. Metabolic disturbances: 4.3%. Organomegaly: 3.4%. CNS anomalies and neuroimaging findings: 2.7% and an asymptomatic group: 0.2%. A final diagnosis was confirmed in 782/1289 patients (60.6%) among which 288 (36.8%) were metabolic disorders: Aminoacidopathies were diagnosed in 146 patients (18.7%), lysosomal storage disorders in 78 (10%), organic acidurias in 18 (2.3%), dyslipideamias in 10 (1.3%), other leukodystrophies in 10 (1.3%), mitochondrial disorders in 9 (1.2%), carbohydrate metabolic disorders in 8 (1%), peroxisomal disorders in 6 (0.8%), metal disorders in 3 (0.4%), urea cycle disorders in 3 (0.4%) and 1 (0.1%) had a congenital disorder of glycosylation. 494 patients (63.2%) had genetic and other non metabolic diseases. Conclusion Inherited inborn errors of metabolism and genetic non metabolic disorders are not uncommon in Egyptian population due to high rate of consanguinous marriages. Therefore, we recommend initiation of a national newborn screening program or at least, a selective screening for the high risk families for early diagnosis and future prevention of disabilities caused by these disorders.