After some research, I believe the answer is yes. Congenital anomalies (or congenital defects) are, inherently present at birth. The World Health Organization's first 'key fact' about congenital anomalies states:
Congenital anomalies (also referred as birth defects) affect
approximately 1 in 33 infants and result in approximately 3.2 million
birth defect-related disabilities every year.
Congenital can refer to different mechanisms of causation [Brent and Fawcett 2007][reference]:
the etiology of congenital malformations can be divided into three
categories: unknown, genetic, and environ- mental
[reference]: Brent, RL and Fawcett, LB: Developmental toxicology, drugs, and
fetal teratogenesis. In Reece EA, Hobbins JC (eds.) Clinical
Obstetrics: The Fetus and Mother, 3rd edition, Blackwell Publishing
Inc., Malden, MA, Chapter 15, pp. 217-235, 2007.