The Toyota "infotainment" system, in the 4Runner, has always been crap. There are a host of threads detailing problems with it; and what systems they went to. Many folks have moved on to aftermarket systems and some companies make systems to fit the 4Runner and are pretty much plug and play. I don't know about replacing just the amp in the JB system, but a stereo shop might be able to do it. Try looking at Crutchfield for one.