Contact Support and reference this article. 

A client had multiple lookup values on .COSTCODE to use it with rates.  After updating the Payroll Parameter after the toolbox, the Standard Lookup columns of T and M were put there, erasing what they had.  The edit values on the Data Item were still there, but they needed to put back the lookup columns they had, such as an R for rate in order to get to them.

We have found that this was programmed by design and are evaluating whether it should be changed for the future.

Anyone with the issue needs to add their lookup columns back in.  If detail Employee Data Items were printed out as instructed prior to updating, that report can be used to get the previous setup information. The edit values as above are still there and can be printed out on the Edit Values List in Report Manager.