Some Python modules, like lxml, have required components in C. These won't work in Jython.
Most Python packages will work fine, and you can install them using the same tools as you use in CPython. This is described in Appendix A of Jython Book:
To get setuptools, download ez_setup.py from http://peak.telecommunity.com/dist/ez_setup.py. Then, go to the directory where you left the downloaded file and execute:
$ jython ez_setup.py
[The easy_install script will be] installed to the bin directory of the Jython installation (/home/lsoto/jython2.5.0/bin in the example above). If you work frequently with Jython, it’s a good idea to prepend this directory to the PATH environment variable, so you don’t have to type the whole path each time you want to use easy_install or other scripts installed to this directory.
Testing it myself, after installing setuptools in Jython, pip installed correctly:
$ sudo /usr/bin/jython2.5.2b1/bin/easy_install pip Searching for pip [...] Installing pip-2.5 script to /usr/bin/jython2.5.2b1/bin Installing pip script to /usr/bin/jython2.5.2b1/bin Installed /usr/bin/jython2.5.2b1/Lib/site-packages/pip-1.0.2-py2.5.egg Processing dependencies for pip Finished processing dependencies for pip $ sudo /usr/bin/jython2.5.2b1/bin/pip install bottle Downloading/unpacking bottle Downloading bottle-0.9.6.tar.gz (45Kb): 45Kb downloaded Running setup.py egg_info for package bottle Installing collected packages: bottle Running setup.py install for bottle Successfully installed bottle Cleaning up... $ jython Jython 2.5.2b1 (Release_2_5_2beta1:7075, Jun 28 2010, 07:44:20) [Java HotSpot(TM) 64-Bit Server VM (Apple Inc.)] on java1.6.0_26 Type "help", "copyright", "credits" or "license" for more information. >>> import bottle >>> bottle <module 'bottle' from '/usr/bin/jython2.5.2b1/Lib/site-packages/bottle$py.class'> >>>