An independent review into the role of the agency, including the system of meat inspection, is investigating how Scotland could run food safety as an independent system to that in England.
The Scottish government told The Grocer this week it could not rule out the FSA losing its jurisdiction. It follows last year's stripping of a raft of powers from the FSA in England, which saw its nutrition remit taken on by Defra, with the FSA streamlined to concentrate on food safety issues.
The BRC said it feared the review in Scotland could become a source of confusion for retailers and suppliers, many of whom have stores and supply chains in both countries.
"Food safety cannot have a border," said BRC director general Stephen Robertson. "Can you imagine a situation where in England the FSA says a product is unsafe but in Scotland the body says it is safe? It could be chaos."
The review in Scotland, expected to report to first minister Alex Salmond later this year, is being carried out by a panel led by former UK chief vet, Professor Jim Scudamore.