Question: I'm a first year computer engineering student and I'm quite new here. I have been learning Java for the past three and a half months, and C++ for six months before that. My knowledge of Java is limited to defining and using own methods, absolute basics of object-oriented programming like use of static data members and member visibility.

This afternoon, my computer programming prof taught us about multi-dimensional arrays in Java. About multi-dimensional arrays being simply arrays of arrays and so on. He mentioned that in nominal, educational programming, arrays beyond 2 dimensions are almost never used. Even 3D arrays are used only where absolutely essential, like carrying out scientific functions. This leaves next to zero use for 4D arrays as using them shows that "you're using the wrong datatype" in my prof's words.

However, I'd like to write a program in which the use of a 4D array, of any data type, primitive or otherwise, is justified. The program must not be as trivial as printing the elements of the array.

I have no idea where to begin, this is why I am posting this here. I'd like your suggestions. Relevant problem statements, algorithms, and bits and pieces of code are also welcome.

Thank you.

Edit: Forgot to mention, I have absolutely no idea about working with GUIs in Java, so please do not post ideas that implement GUIs.

Answer: 
There are many possible uses. As others have said, you can model a hypercube or something that makes use of a hypercube as well as modeling a change over time. However, there are many other possible uses.

For example, one of the theoretical simulation models of our universe uses 11th dimensional physics. You can write a program to model what these assumed physics would look like. The user would only be able to see a 3-dimensional space which definitely limits usability, but the 4th dimensional coordinate could act like the changing of a channel allowing the user to change their perspective. If a 4th dimensional explosion occurs, for example, you might even want a 5th dimensional array so that you can model what it looks like in each connected 3-dimensional space as well as how it looks in each frame of time.

To take a step away from the scientific, think about an MMORPG. Today many of those games uses "instanced" locations which means that a copy of a given zone is created exclusively for the use of a given group of players so to prevent lag. If this "instanced" concept was given a 4th dimensional coordinate and it allows players to shift their position across instances it could effectively allow all server worlds to be merged together while allowing the players a great deal of control over where they go while decreasing cost.

Of course, your question wants to know about ideas without using a GUI. That's a bit more difficult because you are working in a 2D environment. One real application would be Calculus. We have 3D graphing calculators, but for higher dimensions you pretty much have to do it by hand. A pogram that aims to solve these calculations for you might not be able to properly display the information, but you can certainly calculate it. Also, when hologaphic interfaces become a widespread reality it may be possible to represent a hypercube graph in 3D making such a program useful.

You might be able to write a text based board game where the position of pieces is represented with text. You can add dimensions and game rules to use them.

The simplest idea I could give you is a save state system. At each interval the program in memory is copied and stored into a file. It's coordinate is it's position in time. At face value you may not need a 4D array to handle this, but suppose the program you were saving states of used a 3D array. You could set it up to represent each saved state as a position in time that you can make use of and then view the change in time.
I'm not sure what specifically you could do with this, because I just started thinking about it. But you could possibly use a 4D array for some sort of basic physics simulation, like modeling a projectile flight involving some wind values and what not. That just came to mind because the term 4D always brings to mind that the "position" of any object is 4 values, with time as the 4th.