Change, add and remove lines like the sample include "" lines with the full path to Remotes and Transmitters. Adding them here instead of in /etc/lirc/hardware.conf.
The Ubuntu Remote Control Configuation utility adds them to /etc/lirc/hardware.conf, and the new Ubuntu LIRC script, now assuming a driver cannot both send and receive, tries to setup two lircd instances needlessly (and painfully). Just put them as includes in /etc/lirc/lircd.conf!
It is important to note that the CommandIR driver handles BOTH transmitting and receiving together, adn the Ubuntu script has changed to assume that drivers cannot handle both.
This sample hardware.conf provides a suggested workaround to ease configuration.
Downloads 
