I pushed the maven folder structure to the develop branch. Things that were in as/src are now in src/main/flex. Output that was in js/out is in target/generated-sources/flexjs. XML files that were in the root of projects are now in src/main/resources. Defaults.css files are now in src/main/resources.
Let me know if you run into problems. If you have .as files in that haven't been committed, make sure you move them before you delete folders. I'm not sure how well the build scripts will clean things up so you may need to manually delete js/out and as/src/ folders from your projects. The only things in the root of each project folder (like Core, Binding, etc) should be a build.xml and a src folder, and a target folder after you've run a build. Hopefully Chris can do some better Maven support for FlexJS and we can push out another release. Thanks, -Alex