diff -r 4a65c9c6cd3f -r e2178f7d17c0 mercurial/manifest.py
--- a/mercurial/manifest.py	Tue Apr 19 11:00:15 2016 +0100
+++ b/mercurial/manifest.py	Mon May 02 15:22:16 2016 -0700
@@ -211,8 +211,10 @@
 
     def filesnotin(self, m2):
         '''Set of files in this manifest that are not in the other'''
-        files = set(self)
-        files.difference_update(m2)
+        diff = self.diff(m2)
+        files = set(filepath
+                    for filepath, hashflags in diff.iteritems()
+                    if hashflags[1][0] is None)
         return files
 
     @propertycache