Hello there, @LindseyAllian!
We can create a new payroll item for your employee's retroactive increase and manually enter the total salary when you create their paycheck.
- Go to Workers.
- Select Employees.
- Find and open your employee's profile with the retroactive salary increase.
- Click the Pencil icon next to Pay.
- Under Box 5, select Add additional pay types.
- Select Other earnings.
- Enter Retroactive Salary as the name of your payroll item.
- Click Done.
Lastly, here's a few articles you can read to help manage your payroll account and related transactions: Help Articles for QuickBooks Online Payroll.
If there's anything else that I can help you with, let me know in the comments. I'll be here to lend a hand.