diff --git a/app/src/processing/app/Base.java b/app/src/processing/app/Base.java
index e0e9858d4..b8524f5f2 100644
--- a/app/src/processing/app/Base.java
+++ b/app/src/processing/app/Base.java
@@ -433,6 +433,11 @@ public class Base {
       }
     }
 
+    // Save the preferences. For GUI mode, this happens in the quit
+    // handler, but for other modes we should also make sure to save
+    // them.
+    Preferences.save();
+
     switch (action) {
       case VERIFY:
       case UPLOAD: