diff -r 2be0bf186950 -r e1c56486d1aa hgext/sparse.py
--- a/hgext/sparse.py	Wed Aug 02 15:48:57 2017 -0700
+++ b/hgext/sparse.py	Fri Aug 04 05:38:22 2017 -0700
@@ -155,7 +155,8 @@
     if include or exclude or enableprofile:
         def clonesparse(orig, self, node, overwrite, *args, **kwargs):
             sparse.updateconfig(self.unfiltered(), pat, {}, include=include,
-                                exclude=exclude, enableprofile=enableprofile)
+                                exclude=exclude, enableprofile=enableprofile,
+                                usereporootpaths=True)
             return orig(self, node, overwrite, *args, **kwargs)
         extensions.wrapfunction(hg, 'updaterepo', clonesparse)
     return orig(ui, repo, *args, **opts)