All the RF remotes I've set up have a RF base station that is mounted in the cabinet, which has IR out's that go to each piece of equipment. I run cat5 to the projector for control along with RGBHV or just component in the installs that i've done. Cat5 is used for either IR from the RF base station, or we use it as RS232 from a crestron controller. Good news is that as long as you have it up there, you have lots of options for how to hook up your equipment. I've never seen a RF remote that directly communicates with RF equipment, they usually work on different signals, so IR is still used from the remotes RF base station, but line of sight is not required.
Brian