diff --git a/frappe/database/query.py b/frappe/database/query.py
index 53ba59b690..ff0ec3b9f7 100644
--- a/frappe/database/query.py
+++ b/frappe/database/query.py
@@ -109,6 +109,7 @@ class Engine:
 		self.parent_doctype = parent_doctype
 		self.reference_doctype = reference_doctype
 		self.apply_permissions = not ignore_permissions
+		self.function_aliases = set()
 
 		if isinstance(table, Table):
 			self.table = table
@@ -841,6 +842,10 @@ class Engine:
 			# For numeric field references, return as-is (will be handled by caller)
 			return field_name
 
+		# Allow function aliases - return as Field (no table prefix)
+		if field_name in self.function_aliases:
+			return Field(field_name)
+
 		# Reject backticks
 		if "`" in field_name:
 			frappe.throw(
@@ -1690,6 +1695,7 @@ class SQLFunctionParser:
 			)
 
 		if alias:
+			self.engine.function_aliases.add(alias)
 			return function_call.as_(alias)
 		else:
 			return function_call
diff --git a/frappe/tests/test_db_query.py b/frappe/tests/test_db_query.py
index df7f99e0b4..c40d5e9cac 100644
--- a/frappe/tests/test_db_query.py
+++ b/frappe/tests/test_db_query.py
@@ -1126,6 +1126,17 @@ class TestDBQuery(IntegrationTestCase):
 		):
 			frappe.get_all("Virtual DocType", filters={"name": "test"}, fields=["name"], limit=1)
 
+	def test_function_alias_in_clauses(self):
+		result = frappe.get_list(
+			"ToDo",
+			fields=["status", {"COUNT": "1", "as": "count"}],
+			group_by="status",
+			order_by="count desc",
+			limit=1,
+		)
+		self.assertTrue(result)
+		self.assertIn("count", result[0])
+
 	def test_coalesce_with_in_ops(self):
 		self.assertNotIn("ifnull", frappe.get_all("User", {"first_name": ("in", ["a", "b"])}, run=0))
 		self.assertIn("ifnull", frappe.get_all("User", {"first_name": ("in", ["a", None])}, run=0))