Hi Michael,

Thank you for using Community Hub.

With regards to receiving an FPS from a payroll, HMRC don't care where it comes from or who physically sends it.

HMRC use credentials from the FPS to match it to the correct business account, and update figures accordingly. 

The FPS is accumulative so it picks up the values in the Opening Values tab, P45 information and current pay run information for the submissions. 

If the HMRC discrepancy is specifically the  PAYE, then the opening balances and/or P45 info or incorrect employee tax codes are the most likely culprits.

I suggest checking these. 

If you find an employee(s) who have been processed with incorrect figures, run through the corrections procedure from month 9.

Do this for month 10 and 11 also.

Use the article in the link below, from section "You will pay your employee the adjusted amount in a following pay period >"

Correct a completed pay run

If the employees have been processed with incorrect tax codes, you will need to incorporate the following article into the correction process.

I changed an employee tax code but it hasn't affected previous pay runs

If the HMRC discrepancy is not just in PAYE but NI also, the culprit may be the NI allowance or statutory payment opening balances.

Entering your employment allowance values

Entering missing employment allowance figures will make a correction to liabilities in the next payment run, and will be reported to HMRC via the March EPS.

A conversation with HMRC as to where and when the discrepancies happened would be helpful, as you may be trying to fix something which crept in prior to moving payrolls.

Kind regards,

Nigel

Sage UKI