diff --git a/Tests/ttLib/tables/_g_l_y_f_test.py b/Tests/ttLib/tables/_g_l_y_f_test.py
index 71627b82b..4f38d0cb1 100644
--- a/Tests/ttLib/tables/_g_l_y_f_test.py
+++ b/Tests/ttLib/tables/_g_l_y_f_test.py
@@ -391,10 +391,11 @@ class GlyfTableTest(unittest.TestCase):
         font["hmtx"].metrics = {".notdef": (100, 0)}
         font["head"] = newTable("head")
         font["head"].unitsPerEm = 1000
-        self.assertEqual(
-            font["glyf"].getPhantomPoints(".notdef", font, 0),
-            [(0, 0), (100, 0), (0, 0), (0, -1000)],
-        )
+        with pytest.deprecated_call():
+            self.assertEqual(
+                font["glyf"].getPhantomPoints(".notdef", font, 0),
+                [(0, 0), (100, 0), (0, 0), (0, -1000)],
+            )
 
 
 class GlyphTest:
diff --git a/Tests/ttLib/ttGlyphSet_test.py b/Tests/ttLib/ttGlyphSet_test.py
index 2579fc1c4..6a459be80 100644
--- a/Tests/ttLib/ttGlyphSet_test.py
+++ b/Tests/ttLib/ttGlyphSet_test.py
@@ -144,7 +144,8 @@ class TTGlyphSetTest(object):
         assert list(glyphset.keys()) == [".notdef", "I"]
 
         assert "I" in glyphset
-        assert glyphset.has_key("I")  # we should really get rid of this...
+        with pytest.deprecated_call():
+            assert glyphset.has_key("I")  # we should really get rid of this...
 
         assert len(glyphset) == 2
 
diff --git a/Tests/varLib/instancer/instancer_test.py b/Tests/varLib/instancer/instancer_test.py
index b913b78f5..499f9d4f0 100644
--- a/Tests/varLib/instancer/instancer_test.py
+++ b/Tests/varLib/instancer/instancer_test.py
@@ -51,7 +51,8 @@ def fvarAxes():
 def _get_coordinates(varfont, glyphname):
     # converts GlyphCoordinates to a list of (x, y) tuples, so that pytest's
     # assert will give us a nicer diff
-    return list(varfont["glyf"].getCoordinatesAndControls(glyphname, varfont)[0])
+    with pytest.deprecated_call():
+        return list(varfont["glyf"].getCoordinatesAndControls(glyphname, varfont)[0])
 
 
 class InstantiateGvarTest(object):