I was a frequent user of 3 mg nicotine pouches while attempting to have a child. my wife reached her third trimester and we haven't been told of any congenital issues. will my baby be okay?

Males get a pass on much of the effects of their bad habits. They make millions of sperm from stem cells & the healthiest of that bunch swim better to do the job. Women get the bad deal since they are born with all the eggs they will ever have & anything they do in life or during pregnancy may effect the outcome. I wouldn't worry about it, don't smoke after baby comes if you want it to be healthy