Hi SDTaxman,
From the limited information available we can only provide general advice.
If you require account specific advice please contact the VAT helpline
VAT: general enquiries
If it is an Officers Assessment that has been raised and is showing on your VAT account, then VAT returns would not need to be amended by the business as the Officer’s Assessment would normally detail the returns they have amended.
You can check you VAT account via your Business Tax Account on www.gov.uk.
Thank you.