NI Employee and Employer has been calculated for 2020/21 but pay below the thresholds

Hi @Tom198... I did manage eventually to resolve it but it was a bit of a nightmare! When the client was originally set up for payroll he was supposed to be paid weekly, so was therefore set up as 'Alternative' method for Dirctor's NI Calculations, since the payments should have been regular. As it turned out with the pandemic, he wasn't paid regularly so some payments were above/some below the threshold. Unfortunately, after contacting QB, was told that the Director's NI Calculation can't be changed to Annual method once payroll has already been run, therefore all the pay runs for the year would need to be 'rolled-back' to the 6th April and re-run. In this case, this actually related to the previous year 2020/21 and since an Earlier Year Update can no longer be done, I had to resubmit all the payroll (and amended FPS) through HMRC Basic PAYE Tools. This did result in a refund for the overpaid tax. If you are in the current year, according to QB you would need to delete all the pay runs, which if it is monthly is not too bad (I had weekly to do :( ) and then you need to change the settings for the Director's NI to Annual, then re-run the payroll for the year, and submit the amended FPS. This should then correct the NI calculated to the annual amount over the year. It is a bit time consuming but hope that helps!