Now reading the question again ... you did not mention if you were taking a paycheck and issuing yourself a W-2 at the end of the year as you must do as an S-Corp owner who works the business. Not taking a wage is the fastest way for an S-corp to be audited . See the info here for the health insurance FAQs...
https://www.irs.gov/businesses/small-businesses-self-employed/s-corporation-compensation-and-medical...
