diff --git a/patroni/postgresql/config.py b/patroni/postgresql/config.py
index d3db7254..526d3959 100644
--- a/patroni/postgresql/config.py
+++ b/patroni/postgresql/config.py
@@ -585,7 +585,7 @@ class ConfigHandler(object):
 
         try:
             values = self._get_pg_settings(self._recovery_parameters_to_compare).values()
-            values = {p[0]: [p[1], p[4] == 'postmaster'] for p in values}
+            values = {p[0]: [p[1], p[4] == 'postmaster', p[5]] for p in values}
             self._postgresql_conf_mtime = pg_conf_mtime
             self._auto_conf_mtime = auto_conf_mtime
             self._postmaster_ctime = postmaster_ctime
@@ -694,6 +694,12 @@ class ConfigHandler(object):
 
         wanted_recovery_params = self.build_recovery_params(member)
         for param, value in self._current_recovery_params.items():
+            # Skip certain parameters defined in the included postgres config files
+            # if we know that they are not specified in the patroni configuration.
+            if len(value) > 2 and value[2] not in (self._postgresql_conf, self._auto_conf) and \
+                    param in ('archive_cleanup_command', 'promote_trigger_file', 'recovery_end_command',
+                              'recovery_min_apply_delay', 'restore_command') and param not in wanted_recovery_params:
+                continue
             if param == 'recovery_min_apply_delay':
                 if not compare_values('integer', 'ms', value[0], wanted_recovery_params.get(param, 0)):
                     record_missmatch(value[1])
@@ -863,7 +869,7 @@ class ConfigHandler(object):
         self._postgresql.set_connection_kwargs(self.local_connect_kwargs)
 
     def _get_pg_settings(self, names):
-        return {r[0]: r for r in self._postgresql.query(('SELECT name, setting, unit, vartype, context '
+        return {r[0]: r for r in self._postgresql.query(('SELECT name, setting, unit, vartype, context, sourcefile'
                                                          + ' FROM pg_catalog.pg_settings ' +
                                                          ' WHERE pg_catalog.lower(name) = ANY(%s)'),
                                                         [n.lower() for n in names])}
diff --git a/tests/test_postgresql.py b/tests/test_postgresql.py
index 6331a06b..a63c572e 100644
--- a/tests/test_postgresql.py
+++ b/tests/test_postgresql.py
@@ -206,14 +206,16 @@ class TestPostgresql(BaseTestPostgresql):
     @patch('patroni.postgresql.config.ConfigHandler._get_pg_settings')
     def test_check_recovery_conf(self, mock_get_pg_settings):
         mock_get_pg_settings.return_value = {
-            'primary_conninfo': ['primary_conninfo', 'foo=', None, 'string', 'postmaster'],
-            'recovery_min_apply_delay': ['recovery_min_apply_delay', '0', 'ms', 'integer', 'sighup']
+            'primary_conninfo': ['primary_conninfo', 'foo=', None, 'string', 'postmaster', self.p.config._auto_conf],
+            'recovery_min_apply_delay': ['recovery_min_apply_delay', '0', 'ms', 'integer', 'sighup', 'foo']
         }
         self.assertEqual(self.p.config.check_recovery_conf(None), (True, True))
         self.p.config.write_recovery_conf({'standby_mode': 'on'})
         self.assertEqual(self.p.config.check_recovery_conf(None), (True, True))
         mock_get_pg_settings.return_value['primary_conninfo'][1] = ''
         mock_get_pg_settings.return_value['recovery_min_apply_delay'][1] = '1'
+        self.assertEqual(self.p.config.check_recovery_conf(None), (False, False))
+        mock_get_pg_settings.return_value['recovery_min_apply_delay'][5] = self.p.config._auto_conf
         self.assertEqual(self.p.config.check_recovery_conf(None), (True, False))
         mock_get_pg_settings.return_value['recovery_min_apply_delay'][1] = '0'
         self.assertEqual(self.p.config.check_recovery_conf(None), (False, False))
@@ -234,7 +236,8 @@ class TestPostgresql(BaseTestPostgresql):
     @patch.object(MockPostmaster, 'create_time', Mock(return_value=1234567), create=True)
     @patch('patroni.postgresql.config.ConfigHandler._get_pg_settings')
     def test__read_recovery_params(self, mock_get_pg_settings):
-        mock_get_pg_settings.return_value = {'primary_conninfo': ['primary_conninfo', '', None, 'string', 'postmaster']}
+        mock_get_pg_settings.return_value = {'primary_conninfo': ['primary_conninfo', '', None, 'string',
+                                                                  'postmaster', self.p.config._postgresql_conf]}
         self.p.config.write_recovery_conf({'standby_mode': 'on', 'primary_conninfo': {'password': 'foo'}})
         self.p.config.write_postgresql_conf()
         self.assertEqual(self.p.config.check_recovery_conf(None), (False, False))