Changing to and from NetBeans can cause confusion. IDEs tend to put all their source files in a src folder. If you compiled the KMF class inside the src folder, then the .class file will probably be inside another folder, corresponding to its package structure. Have you got a lot of classes? What packages are they in? Is the .class file actually in that directory?
Can you execute it with java -classpath D:\Libraries\SQLite_DAL.jar packageName.JavaApplication_KMF_Test ?
It might be worthwhile posting the folder structure, if you can fit it onto the page.