diff --git a/superset/connectors/sqla/models.py b/superset/connectors/sqla/models.py
index 0d7b26248f89a..61fd9fc7f58e9 100644
--- a/superset/connectors/sqla/models.py
+++ b/superset/connectors/sqla/models.py
@@ -1492,7 +1492,7 @@ def get_rendered_sql(
                         msg=ex.message,
                     )
                 ) from ex
-        sql = sqlparse.format(sql.strip("\t\r\n; "))
+        sql = sqlparse.format(sql.strip("\t\r\n; "), strip_comments=True)
         if not sql:
             raise QueryObjectValidationError(_("Virtual dataset query cannot be empty"))
         if len(sqlparse.split(sql)) > 1:
diff --git a/superset/db_engine_specs/base.py b/superset/db_engine_specs/base.py
index 2d41a3c79be08..5b850913ed778 100644
--- a/superset/db_engine_specs/base.py
+++ b/superset/db_engine_specs/base.py
@@ -916,8 +916,9 @@ def apply_top_to_sql(cls, sql: str, limit: int) -> str:
         cte = None
         sql_remainder = None
         sql = sql.strip(" \t\n;")
+        sql_statement = sqlparse.format(sql, strip_comments=True)
         query_limit: int | None = sql_parse.extract_top_from_query(
-            sql, cls.top_keywords
+            sql_statement, cls.top_keywords
         )
         if not limit:
             final_limit = query_limit
@@ -926,7 +927,7 @@ def apply_top_to_sql(cls, sql: str, limit: int) -> str:
         else:
             final_limit = limit
         if not cls.allows_cte_in_subquery:
-            cte, sql_remainder = sql_parse.get_cte_remainder_query(sql)
+            cte, sql_remainder = sql_parse.get_cte_remainder_query(sql_statement)
         if cte:
             str_statement = str(sql_remainder)
             cte = cte + "\n"
diff --git a/superset/models/helpers.py b/superset/models/helpers.py
index 11c5a91dc5da8..51b771ff61f84 100644
--- a/superset/models/helpers.py
+++ b/superset/models/helpers.py
@@ -1071,7 +1071,7 @@ def get_rendered_sql(
                         msg=ex.message,
                     )
                 ) from ex
-        sql = sqlparse.format(sql.strip("\t\r\n; "))
+        sql = sqlparse.format(sql.strip("\t\r\n; "), strip_comments=True)
         if not sql:
             raise QueryObjectValidationError(_("Virtual dataset query cannot be empty"))
         if len(sqlparse.split(sql)) > 1:
diff --git a/superset/sqllab/query_render.py b/superset/sqllab/query_render.py
index 67bea2b1fb4cd..caf9a3cb2b206 100644
--- a/superset/sqllab/query_render.py
+++ b/superset/sqllab/query_render.py
@@ -60,6 +60,7 @@ def render(self, execution_context: SqlJsonExecutionContext) -> str:
 
             parsed_query = ParsedQuery(
                 query_model.sql,
+                strip_comments=True,
                 engine=query_model.database.db_engine_spec.engine,
             )
             rendered_query = sql_template_processor.process_template(
diff --git a/tests/integration_tests/conftest.py b/tests/integration_tests/conftest.py
index 20c620b65832e..b90416587c2e8 100644
--- a/tests/integration_tests/conftest.py
+++ b/tests/integration_tests/conftest.py
@@ -305,7 +305,6 @@ def virtual_dataset():
             "SELECT 3 as col1, 'd' as col2, 1.3, NULL, '2000-01-04 00:00:00', 4 "
             "UNION ALL "
             "SELECT 4 as col1, 'e' as col2, 1.4, NULL, '2000-01-05 00:00:00', 5 "
-            "\n /* CONTAINS A RANDOM COMMENT */ \n"
             "UNION ALL "
             "SELECT 5 as col1, 'f' as col2, 1.5, NULL, '2000-01-06 00:00:00', 6 "
             "UNION ALL "
diff --git a/tests/integration_tests/core_tests.py b/tests/integration_tests/core_tests.py
index f9a8c407beb73..ef20fc25af536 100644
--- a/tests/integration_tests/core_tests.py
+++ b/tests/integration_tests/core_tests.py
@@ -539,9 +539,7 @@ def test_comments_in_sqlatable_query(self):
             database=get_example_database(),
         )
         rendered_query = str(table.get_from_clause()[0])
-        assert "comment 1" in rendered_query
-        assert "comment 2" in rendered_query
-        assert "FROM tbl" in rendered_query
+        self.assertEqual(clean_query, rendered_query)
 
     def test_slice_payload_no_datasource(self):
         form_data = {
diff --git a/tests/integration_tests/datasource_tests.py b/tests/integration_tests/datasource_tests.py
index a36f6da5da252..91e843fc3f883 100644
--- a/tests/integration_tests/datasource_tests.py
+++ b/tests/integration_tests/datasource_tests.py
@@ -529,12 +529,10 @@ def test_get_samples(test_client, login_as_admin, virtual_dataset):
     assert "coltypes" in rv2.json["result"]
     assert "data" in rv2.json["result"]
 
-    sql = (
-        f"select * from ({virtual_dataset.sql}) as tbl "
-        f'limit {app.config["SAMPLES_ROW_LIMIT"]}'
+    eager_samples = virtual_dataset.database.get_df(
+        f"select * from ({virtual_dataset.sql}) as tbl"
+        f' limit {app.config["SAMPLES_ROW_LIMIT"]}'
     )
-    eager_samples = virtual_dataset.database.get_df(sql)
-
     # the col3 is Decimal
     eager_samples["col3"] = eager_samples["col3"].apply(float)
     eager_samples = eager_samples.to_dict(orient="records")
diff --git a/tests/integration_tests/sqllab_tests.py b/tests/integration_tests/sqllab_tests.py
index b13eccdd9020c..5248aab2eb4de 100644
--- a/tests/integration_tests/sqllab_tests.py
+++ b/tests/integration_tests/sqllab_tests.py
@@ -571,9 +571,9 @@ def test_sql_json_parameter_error(self):
         assert data["status"] == "success"
 
         data = self.run_sql(
-            "SELECT * FROM birth_names WHERE state = '{{ state }}' -- blabblah {{ extra1 }}\nLIMIT 10",
+            "SELECT * FROM birth_names WHERE state = '{{ state }}' -- blabblah {{ extra1 }} {{fake.fn()}}\nLIMIT 10",
             "3",
-            template_params=json.dumps({"state": "CA", "extra1": "comment"}),
+            template_params=json.dumps({"state": "CA"}),
         )
         assert data["status"] == "success"