Hi @val32
As this goes over two tax years, I think the only way to sort this out will be to contact HMRC & get them to refund the employee.
Or get their authorisation to refund the employee & offset against your monthly NIC/PAYE payments - as, technically, it's your mistake not the employee's or HMRC's.
NIC is not like PAYE - it's non-cumulative - so is very difficult to fix errors without causing other problems.
Was the employee's DOB entered incorrectly?
This really should have been done automatically by QB Payroll - or at least flagged by HMRC RTI.