Kemulator is for Java-phone gamesbut this do not have option for disable layers. I read about ArtMoney, I tried but I do not how to use that with this Kemulator.Help.
I'm not an art money guy myself. But I have a tutorial on how to rip from anything using free software. This will show you how to remove a background and save your sprites for mugen. Here is the link, http://www.mugen-wiki.info/index.php/Main/HowToRipSpritesFromAnythingUsingFreeSoftwareI'm also going to move this to dev help, more people use that board and your question qualifies.