From the QuickBooks Reports menu, choose Employees & Payroll, and then Payroll Transactions by Payee.
Click the Modify Report button.
Click the Display tab and select All from the Dates drop-down list.
In the Columns drop-down list, clear Name and select Paid Through and Payroll Item.
Click the Filters tab. In the Choose Filter drop-down list:

Select Transaction Type, and then Selected Transaction Types in the Transaction Type drop-down list.
In the Select Transaction Types window, make sure Payroll Liability Check and Liability Adjustment are selected and all other options cleared, and then click OK.
Select Paid Through and then Last Calendar Year in the Paid Through drop-down list.
Select Payroll Item, and then Selected Payroll Items in the Payroll Item drop-down list.
In the Select Payroll Items window, choose Federal Withholding, Medicare Company, Medicare Employee, Social Security Company, and Social Security Employee.
Clear any other selected items and then click OK.

In the Current Filter Choices list, choose Detail Level, and then choose All.
click OK to return to the Payroll Transactions by Payee report.

The Amount column total should equal the Line 12 amount.
Ensure that all Form 943 deposits for the year were paid through the Pay Liabilities window. From the QuickBooks Employees menu, choose Pay Payroll Liabilities. The Payroll Transactions by Payee report created above should match the paper record of deposits for the quarter, including the date of deposit, the period they were paid through, and the total amount for each payroll item.
QuickBooks may report liability payments incorrectly if the liability check was edited after it was created. If a liability check was edited, delete and then re-create it with the updated information.
If you know you've recorded the deposit in your QuickBooks, find the deposit and check that the type is specifically LIAB CHK and not just CHK.
If you find that this is the case, follow the steps outlined in the following link. http://search.intuit.com/KanisaSupportSite/search.do?cmd=displayKC&docType=kc&externalId=1000686&sliceId=SAL_Public&dialogID=1255533&stateId=0 0 1253283