diff --git a/erpnext/accounts/doctype/purchase_invoice/test_purchase_invoice.py b/erpnext/accounts/doctype/purchase_invoice/test_purchase_invoice.py
index e353435661c..76fbfd2f4e2 100644
--- a/erpnext/accounts/doctype/purchase_invoice/test_purchase_invoice.py
+++ b/erpnext/accounts/doctype/purchase_invoice/test_purchase_invoice.py
@@ -1838,6 +1838,52 @@ class TestPurchaseInvoice(FrappeTestCase, StockTestMixin):
 
 		frappe.db.set_single_value("Buying Settings", "maintain_same_rate", 1)
 
+	def test_adjust_incoming_rate_for_rejected_item(self):
+		frappe.db.set_single_value("Buying Settings", "maintain_same_rate", 0)
+
+		frappe.db.set_single_value("Buying Settings", "set_landed_cost_based_on_purchase_invoice_rate", 1)
+
+		# Cost of Item is zero in Purchase Receipt
+		pr = make_purchase_receipt(qty=1, rejected_qty=1, rate=0)
+
+		stock_value_difference = frappe.db.get_value(
+			"Stock Ledger Entry",
+			{"voucher_type": "Purchase Receipt", "voucher_no": pr.name},
+			"stock_value_difference",
+		)
+		self.assertEqual(stock_value_difference, 0)
+
+		pi = create_purchase_invoice_from_receipt(pr.name)
+		for row in pi.items:
+			row.qty = 1
+			row.rate = 150
+
+		pi.save()
+		pi.submit()
+
+		stock_value_difference = frappe.db.get_value(
+			"Stock Ledger Entry",
+			{"voucher_type": "Purchase Receipt", "voucher_no": pr.name, "warehouse": pi.items[0].warehouse},
+			"stock_value_difference",
+		)
+		self.assertEqual(stock_value_difference, 150)
+
+		stock_value_difference = frappe.db.get_value(
+			"Stock Ledger Entry",
+			{
+				"voucher_type": "Purchase Receipt",
+				"voucher_no": pr.name,
+				"warehouse": pi.items[0].rejected_warehouse,
+			},
+			"stock_value_difference",
+		)
+
+		self.assertFalse(stock_value_difference)
+
+		frappe.db.set_single_value("Buying Settings", "set_landed_cost_based_on_purchase_invoice_rate", 0)
+
+		frappe.db.set_single_value("Buying Settings", "maintain_same_rate", 1)
+
 	def test_item_less_defaults(self):
 		pi = frappe.new_doc("Purchase Invoice")
 		pi.supplier = "_Test Supplier"
diff --git a/erpnext/stock/doctype/purchase_receipt/purchase_receipt.py b/erpnext/stock/doctype/purchase_receipt/purchase_receipt.py
index 76ecf0fd596..22d7012cc8b 100644
--- a/erpnext/stock/doctype/purchase_receipt/purchase_receipt.py
+++ b/erpnext/stock/doctype/purchase_receipt/purchase_receipt.py
@@ -920,12 +920,17 @@ class PurchaseReceipt(BuyingController):
 				)
 
 	def enable_recalculate_rate_in_sles(self):
+		rejected_warehouses = frappe.get_all(
+			"Purchase Receipt Item", filters={"parent": self.name}, pluck="rejected_warehouse"
+		)
+
 		sle_table = frappe.qb.DocType("Stock Ledger Entry")
 		(
 			frappe.qb.update(sle_table)
 			.set(sle_table.recalculate_rate, 1)
 			.where(sle_table.voucher_no == self.name)
 			.where(sle_table.voucher_type == "Purchase Receipt")
+			.where(sle_table.warehouse.notin(rejected_warehouses))
 		).run()