diff --git a/erpnext/manufacturing/doctype/bom/bom.py b/erpnext/manufacturing/doctype/bom/bom.py
index bf29474c00..9b6cf46c11 100644
--- a/erpnext/manufacturing/doctype/bom/bom.py
+++ b/erpnext/manufacturing/doctype/bom/bom.py
@@ -1025,7 +1025,7 @@ def get_bom_items_as_dict(
 		query = query.format(
 			table="BOM Scrap Item",
 			where_conditions="",
-			select_columns=", bom_item.idx, item.description, is_process_loss",
+			select_columns=", item.description, is_process_loss",
 			is_stock_item=is_stock_item,
 			qty_field="stock_qty",
 		)
@@ -1038,7 +1038,7 @@ def get_bom_items_as_dict(
 			is_stock_item=is_stock_item,
 			qty_field="stock_qty" if fetch_qty_in_stock_uom else "qty",
 			select_columns=""", bom_item.uom, bom_item.conversion_factor, bom_item.source_warehouse,
-				bom_item.idx, bom_item.operation, bom_item.include_item_in_manufacturing, bom_item.sourced_by_supplier,
+				bom_item.operation, bom_item.include_item_in_manufacturing, bom_item.sourced_by_supplier,
 				bom_item.description, bom_item.base_rate as rate """,
 		)
 		items = frappe.db.sql(query, {"qty": qty, "bom": bom, "company": company}, as_dict=True)
diff --git a/erpnext/manufacturing/doctype/work_order/test_work_order.py b/erpnext/manufacturing/doctype/work_order/test_work_order.py
index 3721704840..8934f9c4e0 100644
--- a/erpnext/manufacturing/doctype/work_order/test_work_order.py
+++ b/erpnext/manufacturing/doctype/work_order/test_work_order.py
@@ -1114,6 +1114,36 @@ class TestWorkOrder(FrappeTestCase):
 		except frappe.MandatoryError:
 			self.fail("Batch generation causing failing in Work Order")
 
+	@change_settings(
+		"Manufacturing Settings",
+		{"backflush_raw_materials_based_on": "Material Transferred for Manufacture"},
+	)
+	def test_manufacture_entry_mapped_idx_with_exploded_bom(self):
+		"""Test if WO containing BOM with partial exploded items and scrap items, maps idx correctly."""
+		test_stock_entry.make_stock_entry(
+			item_code="_Test Item",
+			target="_Test Warehouse - _TC",
+			basic_rate=5000.0,
+			qty=2,
+		)
+		test_stock_entry.make_stock_entry(
+			item_code="_Test Item Home Desktop 100",
+			target="_Test Warehouse - _TC",
+			basic_rate=1000.0,
+			qty=2,
+		)
+
+		wo_order = make_wo_order_test_record(
+			qty=1,
+			use_multi_level_bom=1,
+			skip_transfer=1,
+		)
+
+		ste_manu = frappe.get_doc(make_stock_entry(wo_order.name, "Manufacture", 1))
+
+		for index, row in enumerate(ste_manu.get("items"), start=1):
+			self.assertEqual(index, row.idx)
+
 
 def update_job_card(job_card, jc_qty=None):
 	employee = frappe.db.get_value("Employee", {"status": "Active"}, "name")
diff --git a/erpnext/stock/doctype/stock_entry/stock_entry.py b/erpnext/stock/doctype/stock_entry/stock_entry.py
index c0a8e14dbf..1e624714d0 100644
--- a/erpnext/stock/doctype/stock_entry/stock_entry.py
+++ b/erpnext/stock/doctype/stock_entry/stock_entry.py
@@ -1386,7 +1386,6 @@ class StockEntry(StockController):
 		if self.purpose != "Send to Subcontractor" and self.purpose in ["Manufacture", "Repack"]:
 			scrap_item_dict = self.get_bom_scrap_material(self.fg_completed_qty)
 			for item in scrap_item_dict.values():
-				item.idx = ""
 				if self.pro_doc and self.pro_doc.scrap_warehouse:
 					item["to_warehouse"] = self.pro_doc.scrap_warehouse
 
@@ -1902,7 +1901,6 @@ class StockEntry(StockController):
 			se_child.is_process_loss = item_row.get("is_process_loss", 0)
 
 			for field in [
-				"idx",
 				"po_detail",
 				"original_item",
 				"expense_account",