First..... Examiners are finally looking at Beneficial Ownership? I have yet to have it examined.....
Someone should have asked the customer to resolve the discrepancy.
When a customer opens an account here, typically a front-line employee will review the business docs, and very commonly the stated ownership of the company doesn't match the "operating agreement" if that was used to open the account. For example, my side business has 5 individuals on it's operating agreement, but at this point, all other owners have been bought out and two of us own it as 50/50. Our BO says 50/50 but it doesn't match our operating agreement. There are subsequent buyout agreements, but the bank doesn't need those documents to open an account and that might be all the bank has. In that situation, you are relying on the customer's signed certification that the BO is accurate but someone should at least be asking if they see it doesn't match.
Problem in your situation, I bet if you asked the customer, they would say that the chart is accurate, which means, those individuals should have been on the form.