Why do I have pain in between my teeth? If you have aching teeth, it may be due to a dental problem such as cavities, gum disease, bruxism, TMJ or a non-dental problem, such as a sinus infection or even stress. ... Causes of bruxism that lead to aching teeth include crooked teeth, poor jaw alignment, and stress or anxiety. Periodontitis. Periodontitis is a more serious form of ongoing gum disease that can develop from untreated gingivitis. It's an infection caused by plaque buildup that attacks the tissue and bones supporting your teeth. This causes your gums to recede and your teeth to become loose.