Q:

How running jython on nginx? 

How running django-jython on FastCGI in Nginx? 

A:

Short answer: You can't. 
Although nginx can be used as a lightweight web server, its main strength is that it is a very good reverse proxy and it is used primarily in this role. 
You'll need to run your application in a servlet container (like tomcat), and then have nginx proxy to it. 
See the running django on jython section at the django documentation.