See the tutorial video CP-05 that show how to create slave site with specific "/templates" directory.
www.jms2win.com/en/tutorial#jms12x-CP-05
You have to setup the JMS template rule with "templates" action = "special copy" or "copy" AND the "templates folder" = {deploy_dir}/templates
The "discover" function that exists in Joomla 2.5 can be used to install templates into a slave site based on the one present in the master.
In Joomla 1.5, this is not required as joomla automatically detect templates present in the /templates directory. That were modified in Joomla 1.6 or higher that now require a "discover" manual action.
So if you want to be able install specific joomla template directly from a slave site, apply the procedure shown in tutorial video CP-05.