The Java version was always simple because it was the extent of my Java skills. Lovro's program is much smoother, does much more, and looks a lot better.
In the windows version, there is also population numbers to help figure the domination calculation. Also, the GUI is streamlined since all the tile type information isn't that useful to most people, so it is available as a secondary optional window. Also, an option in the menu lets you pick whether you'd like to see raw numbers or percentages for the data.
Other features Lovro included was to automatically calculate the save after picking the file (eliminates some clicking), a recalculate option, an "open newest" save for convenience, as well as other many nice changes. Don't worry, I didn't skimp on the Java features, it's mostly just that Lovro took over the project when it was young.
PTW support is there on windows so I'd suspect PTW compatibility would not be desired on Java until PTW is on Mac. In any case, I've not seen any requests to keep the Java version much up-to-date in terms of features but if the support is there, go for it. You're welcome to add to it what you wish, AlanH. It's cool Mapstat is still alive after all this time.