You still need to add the path to the jython.bat executable to the PATH environment variable. Here, as an example, I provide my ini-jython.bat, which I use before executing my jython project (in this case, the Django on Jython project, you can safely ignore the Django stuff or adapt it to your needs):
set JYTHON_HOME=c:\tools\jython2.5.2 set PATH=%JYTHON_HOME%\bin;%PATH% set CLASSPATH=dep1;dep1/lib/*;_lib/* set JYTHONPATH=.;..\django-debug-toolbar;..\django-common set DJANGO_SETTINGS_MODULE=site_projname.settings set PYTHONPATH=%JYTHONPATH% set manage=jython c:\tools\jython2.5.2\bin\django-admin.py set makemessages=django-admin makemessages --extension html,py set compilemessages=django-admin compilemessages
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