diff --git a/programs/.gitignore b/programs/.gitignore
index 6c8c51571..33593e0e8 100644
--- a/programs/.gitignore
+++ b/programs/.gitignore
@@ -1,4 +1,7 @@
+# Ignore makefiles generated by CMake, but not the makefile that's checked in.
 */Makefile
+!fuzz/Makefile
+
 *.sln
 *.vcxproj