diff --git a/erpnext/stock/doctype/stock_reconciliation/stock_reconciliation.py b/erpnext/stock/doctype/stock_reconciliation/stock_reconciliation.py
index a2fa6f3e410..d3b17cd3ad8 100644
--- a/erpnext/stock/doctype/stock_reconciliation/stock_reconciliation.py
+++ b/erpnext/stock/doctype/stock_reconciliation/stock_reconciliation.py
@@ -163,8 +163,11 @@ class StockReconciliation(StockController):
 	def set_current_serial_and_batch_bundle(self, voucher_detail_no=None, save=False) -> None:
 		"""Set Serial and Batch Bundle for each item"""
 		for item in self.items:
-			if not frappe.db.exists("Item", item.item_code):
-				frappe.throw(_("Item {0} does not exist").format(item.item_code))
+			if voucher_detail_no and voucher_detail_no != item.name:
+				continue
+
+			if not item.item_code:
+				continue
 
 			item_details = frappe.get_cached_value(
 				"Item", item.item_code, ["has_serial_no", "has_batch_no"], as_dict=1
@@ -232,9 +235,6 @@ class StockReconciliation(StockController):
 			if not save and item.use_serial_batch_fields:
 				continue
 
-			if voucher_detail_no and voucher_detail_no != item.name:
-				continue
-
 			if not item.current_serial_and_batch_bundle:
 				serial_and_batch_bundle = frappe.get_doc(
 					{