No, the VAT update does not affect the monthly repayments as the employee's agreement before and after the change is the same. They applied for the cost of the bike previously £1,000 (which incurred VAT for the employer) and they repaid them £1,000. Now, the cost of the bike is still £1,000, and therefore, they repay their employer £1,000. The difference is that there is no VAT to the employer - it is just included at the till.