diff --git a/src/calibre/ebooks/metadata/meta.py b/src/calibre/ebooks/metadata/meta.py
index 77005c0f89..46ee801fd6 100644
--- a/src/calibre/ebooks/metadata/meta.py
+++ b/src/calibre/ebooks/metadata/meta.py
@@ -230,10 +230,13 @@ def opf_metadata(opfpath):
         pass
 
 
-def forked_read_metadata(path, tdir):
+def forked_read_metadata(original_path, tdir):
     from calibre.ebooks.metadata.opf2 import metadata_to_opf
     from calibre.ebooks.metadata.worker import run_import_plugins
-    path = run_import_plugins((path,), os.getpid(), tdir)[0]
+    path = run_import_plugins((original_path,), os.getpid(), tdir)[0]
+    if path != original_path:
+        with lopen(os.path.join(tdir, 'file_changed_by_plugins'), 'w') as f:
+            f.write(os.path.abspath(path))
     with lopen(path, 'rb') as f:
         fmt = os.path.splitext(path)[1][1:].lower()
         f.seek(0, 2)
diff --git a/src/calibre/gui2/auto_add.py b/src/calibre/gui2/auto_add.py
index c11dea88d0..fbaf3a10ff 100644
--- a/src/calibre/gui2/auto_add.py
+++ b/src/calibre/gui2/auto_add.py
@@ -229,7 +229,12 @@ class AutoAdder(QObject):
         added_ids = set()
 
         for fname, tdir in data:
-            paths = [os.path.join(self.worker.path, fname)]
+            path_to_remove = os.path.join(self.worker.path, fname)
+            paths = [path_to_remove]
+            fpath = os.path.join(tdir, 'file_changed_by_plugins')
+            if os.path.exists(fpath):
+                with open(fpath) as f:
+                    paths[0] = f.read()
             sz = os.path.join(tdir, 'size.txt')
             try:
                 with open(sz, 'rb') as f:
@@ -277,7 +282,7 @@ class AutoAdder(QObject):
                 duplicates.append(dups)
 
             try:
-                os.remove(paths[0])
+                os.remove(path_to_remove)
                 self.worker.staging.remove(fname)
             except:
                 import traceback