This also applies to RadioButton.

Run this code to reproduce
@Override
    public void start(Stage stage) throws Exception {
        StackPane root = new StackPane();
        
        final CheckBox che = new CheckBox("MinSize");
        final CheckBox che2 = new CheckBox("PrefSize");
        String style = "-fx-border-color:red;-fx-alignment:bottom-right;";
        che.setStyle(style);
        che2.setStyle(style);
        che.setMinSize(150, 150);
        che2.setPrefSize(150, 150);
        root.getChildren().add(HBoxBuilder.create().children(che, che2).spacing(20).alignment(Pos.CENTER).build());
        
        Scene scene = new Scene(root, 320, 300);
        stage.setScene(scene);
        stage.show();
        stage.setTitle(VersionInfo.getRuntimeVersion());
    }