My program will not close the specified frame in some cases. For some reason it will close fine when ran through IntelliJ using the run command, but after compiling into a jar and wrapping with Launch4J it gets stuck when I try to close it programmatically. Here is the applicable code:
Classic.java
import javax.swing.*;
import java.io.FileNotFoundException;
import java.io.PrintStream;
import java.util.*;
import java.text.SimpleDateFormat;
import static javax.swing.SwingUtilities.invokeLater;
public class Classic extends Game{
    private static JFrame gui;
...
    //Starts game and opens gui
    public void play() {
        invokeLater(Classic::startGUI);
        //startGUI() intiates gui correctly, let me know if you need it
        new Thread(Classic::startGame).start();
    }
...
    public static void startGame() {
        //Program works fine until closing window;
        //Game methods and code omitted
        print("Thank you for playing!" + System.lineSeparator() + "Press enter to exit.");
        boolean end = false;
        while (!end) {
            //isInputReady() checks if user pressed enter
            end = newContentPane.isInputReady();
        }
        gui.dispose();
    }
}
I'm not sure if this is a code error or an error with Launch4J since this only occurs in the Launch4J compiled version (not through IntelliJ or via java.exe -jar).
EDIT: I also tried killing the GUI thread with thread.interrupt(), but that didn't change the outcome.