Filing 1120-S. Wages not matching between Quickbooks P&L and payroll tax forms filed with IRS.

Using Turbo Tax Business (desktop) to file 1120-S. A warning pops up that says payroll entered should match payroll forms files with the IRS.  I use Quickbooks online, and I entered employee and officer wages (under payroll expenses)  as they appear on the P&L report.  When I checked the payroll tax forms from for the same period, it is off by around $250.  After digging, I discovered the difference is the amount of an employee's pre-tax deduction.  Do I need to include a statement because of the discrepancy?