Let me share some information on how the discount feature works in QuickBooks.
There are two types of discount that you can add to your invoice. Whether you add discounts per item on the invoice or discount to its total amount, the system will automatically calculate once you turn on the discount feature in your QuickBooks Account and Settings page.
When creating an invoice and applying the discount, you'd want to choose whether to add it per item on the invoice or discount to its total amount.
If you choose to add Discount Percent per line item, make sure to enter it properly. For Discount percent, make sure to add the percentage symbol (%).
Meanwhile, if you choose Discount Value per item on the invoice, enter the exact amount on the Discount column.
You can read through these articles to help you manage your discounts and invoices in QuickBooks: