I can imagine devices like televisions and DVD/Blu-Ray players coming with Bluetooth interfaces in the future and iPhone remote control applications rather than physical remotes.
This means no searching for the right remote, no losing it (because you can just load the program on another handset), as many duplicate controllers as you have phones in the house and finally that we can have $5 universal remote programs on the app store rather than $100 devices.
The trouble with that scenario is that not everyone would have a compatible mobile device to load the program, so you'd still need the old-fashioned infra-red remote too. Also, a Bluetooth interface would definitely take more power than the infra-red version.
Mokalus of Borg
PS - There would probably still be stand-alone universal remotes for sale.
PPS - They would just have to be compatible with the Bluetooth programs instead.