Going into Manual Processing and pulling up every single payroll check to recalculate fixes the issue.  I have done this on several clients and it works.  Make sure you have the option "Do Not Adjust FICA/Medicare W/H AND the box "Prompt to recalculate" selected under "Payroll Data entry Options".  Those boxes have to be checked in order for it to recalculate.  I had one client that those were not checked and it did not fix the issue until I checked those boxes.  Hope this helps someone else.  This whole thing is ridiculous!  My 941s were showing billions of dollars in some of the boxes before the recalculation.