Prevailing Wage questions

Our company resides in CT and so we have quite a few prevailing wage projects going at any one time.  I have just started with Sage and my 1st week was a nightmare.  The initial setup for employees was done incorrectly and employees were charged taxes on the fringe added as part of the gross pay, then it was deducted.  I believe it has been straightened out but I see when I add up my fringes Sage and I do not match. On this 1st employee time card entry I am off by $1.33.  Not a lot but if that were to happen each week times 52 it would be $69.16 and times just 50 employees would be $3,458 per year.  So...is anyone else having that problem and if so has it been corrected or addressed? 

Also that 1st enter checks I did shows 2 DB Cash entries for amounts I don't recognize. His base is below all the classifications he worked that week, laborer, carpenter, iron worker and finisher. 

Any suggestions?  I have another call into Sage payroll but not everyone there fully understands prevailing wages.

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    The setup for certified payroll and the calculation of cash fringes will vary based on the requirements associated with each project.  Based on the information you provided it sounds like you have a CASH FRINGE PAY set up to calculate the difference between the (required base rate + fringe rate) - (paid  base rate + paid certified fringe rate).  There is a Knowledgebase article that outlines the set (article 21383). This article outlines different options to calculate the PR Paid Cert Fringe Rate. If you are using the standard formulas that are provided with the software, it may be that you need to modify the formula that calculates the PR Cash Fringe Rate by using a different formula for calculating the PR Paid Cert Fringe Rate.