Ponies were getting added to autorun in a reverse order...

...so when they started at system launch the menu option for autorun remained unchecked (VerifyAutorun returned false).

PonyApp/MainWindow.xaml.cs

@@ -73,7 +73,7 @@ public static void StopPony(Pony pone) {
 		public static string ToPoniesString(this List<Pony> PonyList) {
 			string ponies = String.Empty;
 
-			for (int i = Main.PonyList.Count - 1; i >= 0; i--)
+			for (int i = 0; i < Main.PonyList.Count; i++)
 			{
 				ponies += $"\"{Main.PonyList[i].Name}\" ";
 			}