/usr/local/src/freeswitch/modules.conf controls which mods get compiled. If you enable mod_lcr there, then when you build FS it will be included.

What you want to modify is /usr/local/freeswitch/conf/autoload_configs/modules.conf.xml and make sure <load module="mod_lcr"/> is in there. That controls which modules get loaded automatically when FS boots.