I took omeprazole for 3 years , if it had effected bone density, will this return to normal upon stopping the medication?or is that bone loss longterm

No issues: It is highly unlikely that a 38 year old would have experienced any bone loss after 3 years of omeprazole. Do not worry.

??: There is some data that all meds to reduce stomach acid (h2 antagonists and ppi's which is what Omeprazole is not with Tums (calcium carbonate) ) have an increased risk of fracture perhaps this is due to decreased magnesium also a risk with almost all anti seizure meds like Gabapentin please discuss with your doctor and take some vit d (vitamindcouncil.Org).