diff -r df82f375fa00 -r 37a0ad669051 mercurial/ui.py
--- a/mercurial/ui.py	Tue Mar 21 23:30:13 2017 +0100
+++ b/mercurial/ui.py	Tue Mar 21 21:26:52 2017 -0700
@@ -284,6 +284,8 @@
                     del cfg['ui'][k]
             for k, v in cfg.items('defaults'):
                 del cfg['defaults'][k]
+            for k, v in cfg.items('commands'):
+                del cfg['commands'][k]
         # Don't remove aliases from the configuration if in the exceptionlist
         if self.plain('alias'):
             for k, v in cfg.items('alias'):