diff --git a/erpnext/stock/doctype/stock_reconciliation/stock_reconciliation.py b/erpnext/stock/doctype/stock_reconciliation/stock_reconciliation.py
index d3b17cd3ad8..d025de845e1 100644
--- a/erpnext/stock/doctype/stock_reconciliation/stock_reconciliation.py
+++ b/erpnext/stock/doctype/stock_reconciliation/stock_reconciliation.py
@@ -1105,6 +1105,7 @@ class StockReconciliation(StockController):
 		new_sle.actual_qty = row.current_qty * -1
 		new_sle.valuation_rate = row.current_valuation_rate
 		new_sle.serial_and_batch_bundle = row.current_serial_and_batch_bundle
+		new_sle.flags.ignore_permissions = 1
 		new_sle.submit()
 
 		creation = add_to_date(sle_creation, seconds=-1)