diff --git a/erpnext/stock/doctype/stock_reconciliation/stock_reconciliation.py b/erpnext/stock/doctype/stock_reconciliation/stock_reconciliation.py
index f671c11712a4..c13b3620517f 100644
--- a/erpnext/stock/doctype/stock_reconciliation/stock_reconciliation.py
+++ b/erpnext/stock/doctype/stock_reconciliation/stock_reconciliation.py
@@ -166,6 +166,24 @@ def set_current_serial_and_batch_bundle(self, voucher_detail_no=None, save=False
 			if not frappe.db.exists("Item", item.item_code):
 				frappe.throw(_("Item {0} does not exist").format(item.item_code))
 
+			item_details = frappe.get_cached_value(
+				"Item", item.item_code, ["has_serial_no", "has_batch_no"], as_dict=1
+			)
+
+			if not (item_details.has_serial_no or item_details.has_batch_no):
+				continue
+
+			if (
+				not item.use_serial_batch_fields
+				and not item.reconcile_all_serial_batch
+				and not item.serial_and_batch_bundle
+			):
+				frappe.throw(
+					_("Row # {0}: Please add Serial and Batch Bundle for Item {1}").format(
+						item.idx, frappe.bold(item.item_code)
+					)
+				)
+
 			if not item.reconcile_all_serial_batch and item.serial_and_batch_bundle:
 				bundle = self.get_bundle_for_specific_serial_batch(item)
 				item.current_serial_and_batch_bundle = bundle.name
@@ -181,13 +199,6 @@ def set_current_serial_and_batch_bundle(self, voucher_detail_no=None, save=False
 			if voucher_detail_no and voucher_detail_no != item.name:
 				continue
 
-			item_details = frappe.get_cached_value(
-				"Item", item.item_code, ["has_serial_no", "has_batch_no"], as_dict=1
-			)
-
-			if not (item_details.has_serial_no or item_details.has_batch_no):
-				continue
-
 			if not item.current_serial_and_batch_bundle:
 				serial_and_batch_bundle = frappe.get_doc(
 					{
@@ -400,6 +411,28 @@ def set_new_serial_and_batch_bundle(self):
 				item.qty = bundle_doc.total_qty
 				item.valuation_rate = bundle_doc.avg_rate
 
+			elif item.serial_and_batch_bundle and item.qty:
+				self.update_existing_serial_and_batch_bundle(item)
+
+	def update_existing_serial_and_batch_bundle(self, item):
+		batch_details = frappe.get_all(
+			"Serial and Batch Entry",
+			fields=["batch_no", "qty", "name"],
+			filters={"parent": item.serial_and_batch_bundle, "batch_no": ("is", "set")},
+		)
+
+		if batch_details and len(batch_details) == 1:
+			batch = batch_details[0]
+			if abs(batch.qty) == abs(item.qty):
+				return
+
+			update_values = {
+				"qty": item.qty,
+				"stock_value_difference": flt(item.valuation_rate) * flt(item.qty),
+			}
+
+			frappe.db.set_value("Serial and Batch Entry", batch.name, update_values)
+
 	def remove_items_with_no_change(self):
 		"""Remove items if qty or rate is not changed"""
 		self.difference_amount = 0.0