This is with

    java -version
    java version "1.6.0-ea"
    Java(TM) 2 Runtime Environment, Standard Edition (build 1.6.0-ea-b46)
    Java HotSpot(TM) Server VM (build 1.6.0-ea-b46, mixed mode)

and

    xjc -version
    xjc version "2.0-EA"
    JavaTM Architecture for XML Binding(JAXB) Reference Implementation, (build 2.0-EA)

    xjc -b test.xjb test.xsd
    parsing a schema...
    Exception in thread "main" java.lang.NullPointerException
            at com.sun.tools.xjc.ModelLoader.buildDOMForest(ModelLoader.java:284)
            at com.sun.tools.xjc.ModelLoader.loadXMLSchema(ModelLoader.java:322)
            at com.sun.tools.xjc.ModelLoader.load(ModelLoader.java:130)
            at com.sun.tools.xjc.ModelLoader.load(ModelLoader.java:76)
            at com.sun.tools.xjc.Driver.run(Driver.java:232)
            at com.sun.tools.xjc.Driver.run(Driver.java:146)
            at com.sun.tools.xjc.Driver._main(Driver.java:71)
            at com.sun.tools.xjc.Driver.access$000(Driver.java:37)
            at com.sun.tools.xjc.Driver$1.run(Driver.java:51)
Bhakti, Do you have a standalone test case to reproduce this ? From the description, it seems this bug and 6290631 are related. As 6290631 is not reproducable with latest sources, it can be possible that this bug is fixed too.

Can you confirm this ? Latest JAXP 1.4 sources are available from java.net CVS.
Nightly builds are available from "/net/ogla.sfbay/bld1/BUILD_AREA/jaxp1.4/build/latest/binaries"

- Neeraj