diff --git a/erpnext/accounts/doctype/payment_entry/payment_entry.py b/erpnext/accounts/doctype/payment_entry/payment_entry.py
index fc22f53..448224b 100644
--- a/erpnext/accounts/doctype/payment_entry/payment_entry.py
+++ b/erpnext/accounts/doctype/payment_entry/payment_entry.py
@@ -1054,9 +1054,9 @@
 				item=self,
 			)
 
-			dr_or_cr = "credit" if self.payment_type == "Receive" else "debit"
-
 			for d in self.get("references"):
+				# re-defining dr_or_cr for every reference in order to avoid the last value affecting calculation of reverse
+				dr_or_cr = "credit" if self.payment_type == "Receive" else "debit"
 				cost_center = self.cost_center
 				if d.reference_doctype == "Sales Invoice" and not cost_center:
 					cost_center = frappe.db.get_value(d.reference_doctype, d.reference_name, "cost_center")
@@ -1072,11 +1072,9 @@
 					against_voucher_type = d.reference_doctype
 					against_voucher = d.reference_name
 
-				reverse_dr_or_cr, standalone_note = 0, 0
+				reverse_dr_or_cr = 0
 				if d.reference_doctype in ["Sales Invoice", "Purchase Invoice"]:
-					is_return, return_against = frappe.db.get_value(
-						d.reference_doctype, d.reference_name, ["is_return", "return_against"]
-					)
+					is_return = frappe.db.get_value(d.reference_doctype, d.reference_name, "is_return")
 					payable_party_types = get_party_types_from_account_type("Payable")
 					receivable_party_types = get_party_types_from_account_type("Receivable")
 					if is_return and self.party_type in receivable_party_types and (self.payment_type == "Pay"):
@@ -1086,7 +1084,7 @@
 					):
 						reverse_dr_or_cr = 1
 
-					if is_return and not return_against and not reverse_dr_or_cr:
+					if is_return and not reverse_dr_or_cr:
 						dr_or_cr = "debit" if dr_or_cr == "credit" else "credit"
 
 				gle.update(
@@ -1100,6 +1098,7 @@
 				)
 				gl_entries.append(gle)
 
+			dr_or_cr = "credit" if self.payment_type == "Receive" else "debit"
 			if self.unallocated_amount:
 				exchange_rate = self.get_exchange_rate()
 				base_unallocated_amount = self.unallocated_amount * exchange_rate
diff --git a/erpnext/accounts/doctype/payment_entry/test_payment_entry.py b/erpnext/accounts/doctype/payment_entry/test_payment_entry.py
index 603f24a..f4b0c55 100644
--- a/erpnext/accounts/doctype/payment_entry/test_payment_entry.py
+++ b/erpnext/accounts/doctype/payment_entry/test_payment_entry.py
@@ -1290,6 +1290,9 @@
 		self.assertEqual(references[2].payment_term, "Tax Receivable")
 
 	def test_receive_payment_from_payable_party_type(self):
+		"""
+		Checks GL entries generated while receiving payments from a Payable Party Type.
+		"""
 		pe = create_payment_entry(
 			party_type="Supplier",
 			party="_Test Supplier",
@@ -1301,8 +1304,57 @@
 		)
 		self.voucher_no = pe.name
 		self.expected_gle = [
-			{"account": "_Test Cash - _TC", "debit": 1000.0, "credit": 0.0},
 			{"account": "Creditors - _TC", "debit": 0.0, "credit": 1000.0},
+			{"account": "_Test Cash - _TC", "debit": 1000.0, "credit": 0.0},
+		]
+		self.check_gl_entries()
+
+	def test_payment_against_partial_return_invoice(self):
+		"""
+		Checks GL entries generated for partial return invoice payments.
+		"""
+		si = create_sales_invoice(qty=10, rate=10, customer="_Test Customer")
+		credit_note = create_sales_invoice(
+			qty=-4, rate=10, customer="_Test Customer", is_return=1, return_against=si.name
+		)
+		pe = create_payment_entry(
+			party_type="Customer",
+			party="_Test Customer",
+			payment_type="Receive",
+			paid_from="Debtors - _TC",
+			paid_to="_Test Cash - _TC",
+		)
+		pe.set(
+			"references",
+			[
+				{
+					"reference_doctype": "Sales Invoice",
+					"reference_name": si.name,
+					"due_date": si.get("due_date"),
+					"total_amount": si.grand_total,
+					"outstanding_amount": si.outstanding_amount,
+					"allocated_amount": si.outstanding_amount,
+				},
+				{
+					"reference_doctype": "Sales Invoice",
+					"reference_name": credit_note.name,
+					"due_date": credit_note.get("due_date"),
+					"total_amount": credit_note.grand_total,
+					"outstanding_amount": credit_note.outstanding_amount,
+					"allocated_amount": credit_note.outstanding_amount,
+				},
+			],
+		)
+		pe.save()
+		pe.submit()
+		self.assertEqual(pe.total_allocated_amount, 60)
+		self.assertEqual(pe.unallocated_amount, 940)
+		self.voucher_no = pe.name
+		self.expected_gle = [
+			{"account": "Debtors - _TC", "debit": 40.0, "credit": 0.0},
+			{"account": "Debtors - _TC", "debit": 0.0, "credit": 940.0},
+			{"account": "Debtors - _TC", "debit": 0.0, "credit": 100.0},
+			{"account": "_Test Cash - _TC", "debit": 1000.0, "credit": 0.0},
 		]
 		self.check_gl_entries()
 
@@ -1316,7 +1368,7 @@
 				gle.credit,
 			)
 			.where((gle.voucher_no == self.voucher_no) & (gle.is_cancelled == 0))
-			.orderby(gle.account)
+			.orderby(gle.account, gle.debit, gle.credit, order=frappe.qb.desc)
 		).run(as_dict=True)
 		for row in range(len(self.expected_gle)):
 			for field in ["account", "debit", "credit"]:
diff --git a/erpnext/manufacturing/doctype/bom_creator/bom_creator.js b/erpnext/manufacturing/doctype/bom_creator/bom_creator.js
index 0cf2b51..243e52d 100644
--- a/erpnext/manufacturing/doctype/bom_creator/bom_creator.js
+++ b/erpnext/manufacturing/doctype/bom_creator/bom_creator.js
@@ -15,7 +15,7 @@
 				|| frappe.bom_configurator.bom_configurator !== frm.doc.name)) {
 				frm.trigger("build_tree");
 			}
-		} else {
+		} else if (!frm.doc.items?.length ) {
 			let $parent = $(frm.fields_dict["bom_creator"].wrapper);
 			$parent.empty();
 			frm.trigger("make_new_entry");
diff --git a/erpnext/manufacturing/doctype/bom_creator/bom_creator.py b/erpnext/manufacturing/doctype/bom_creator/bom_creator.py
index 058caa3..49041a0 100644
--- a/erpnext/manufacturing/doctype/bom_creator/bom_creator.py
+++ b/erpnext/manufacturing/doctype/bom_creator/bom_creator.py
@@ -6,7 +6,7 @@
 import frappe
 from frappe import _
 from frappe.model.document import Document
-from frappe.utils import flt
+from frappe.utils import cint, flt
 
 from erpnext.manufacturing.doctype.bom.bom import get_bom_item_rate
 
@@ -91,11 +91,19 @@
 		parent_reference = {row.idx: row.name for row in self.items}
 
 		for row in self.items:
-			if row.fg_reference_id:
+			ref_id = ""
+
+			if row.parent_row_no:
+				ref_id = parent_reference.get(cint(row.parent_row_no))
+
+			# Check whether the reference id of the FG Item has correct or not
+			if row.fg_reference_id and row.fg_reference_id == ref_id:
 				continue
 
 			if row.parent_row_no:
-				row.fg_reference_id = parent_reference.get(row.parent_row_no)
+				row.fg_reference_id = ref_id
+			elif row.fg_item == self.item_code:
+				row.fg_reference_id = self.name
 
 	@frappe.whitelist()
 	def add_boms(self):
diff --git a/erpnext/manufacturing/doctype/bom_creator_item/bom_creator_item.json b/erpnext/manufacturing/doctype/bom_creator_item/bom_creator_item.json
index fdb5d3a..56acd8a 100644
--- a/erpnext/manufacturing/doctype/bom_creator_item/bom_creator_item.json
+++ b/erpnext/manufacturing/doctype/bom_creator_item/bom_creator_item.json
@@ -215,7 +215,6 @@
    "fieldname": "parent_row_no",
    "fieldtype": "Data",
    "label": "Parent Row No",
-   "no_copy": 1,
    "print_hide": 1
   },
   {
@@ -231,7 +230,7 @@
  "index_web_pages_for_search": 1,
  "istable": 1,
  "links": [],
- "modified": "2023-08-07 11:52:30.492233",
+ "modified": "2023-11-16 13:34:06.321061",
  "modified_by": "Administrator",
  "module": "Manufacturing",
  "name": "BOM Creator Item",
diff --git a/erpnext/selling/doctype/sales_order/sales_order.py b/erpnext/selling/doctype/sales_order/sales_order.py
index e4f1a28..a97198a 100755
--- a/erpnext/selling/doctype/sales_order/sales_order.py
+++ b/erpnext/selling/doctype/sales_order/sales_order.py
@@ -767,8 +767,11 @@
 		if target.company_address:
 			target.update(get_fetch_values("Delivery Note", "company_address", target.company_address))
 
-		# set target items names to ensure proper linking with packed_items
-		target.set_new_name()
+		# if invoked in bulk creation, validations are ignored and thus this method is nerver invoked
+		if frappe.flags.bulk_transaction:
+			# set target items names to ensure proper linking with packed_items
+			target.set_new_name()
+
 		make_packing_list(target)
 
 	def condition(doc):
diff --git a/erpnext/utilities/bulk_transaction.py b/erpnext/utilities/bulk_transaction.py
index 402c305..57c2f9d 100644
--- a/erpnext/utilities/bulk_transaction.py
+++ b/erpnext/utilities/bulk_transaction.py
@@ -141,6 +141,7 @@
 		},
 		"Purchase Receipt": {"Purchase Invoice": purchase_receipt.make_purchase_invoice},
 	}
+	frappe.flags.bulk_transaction = True
 	if to_doctype in ["Payment Entry"]:
 		obj = mapper[from_doctype][to_doctype](from_doctype, doc_name)
 	else:
@@ -149,6 +150,7 @@
 	obj.flags.ignore_validate = True
 	obj.set_title_field()
 	obj.insert(ignore_mandatory=True)
+	del frappe.flags.bulk_transaction
 
 
 def create_log(doc_name, e, from_doctype, to_doctype, status, log_date=None, restarted=0):