I have made a Java game using LWJGL, which requires some native files. It all works fine in Eclipse. I want to include the .dll files inside a JAR file, but everytime I try,
I just ran into this a few weeks ago. Alas, I do not have links, but I found that you cannot reference native files stored inside of a jar file. You have to either programatically extract them before you reference them, or you have to install them alongside your jar file.
I went with the second option and just have Eclipse pack the whole collection into a zip file for distribution.
For the first option, one place to look would be the source code for JNA. They ship dll's/binaries inside their jar file and extract then on demand.