Disclosed is an improved external controller useable in an implantable medical device system. The communication coil in the external controller is formed in a printed circuit board (PCB), i.e., by using the various tracing layers and vias of the PCB. As illustrated, the PCB coil is formed at a plurality of trace layers in the PCB, and comprises a plurality of turns at some or all of the layers. The communication coil may wrap around the other circuitry used in the external controller, which circuitry may be mounted to the front and/or back of the PCB. The geometry of the coil is specially tailored to maximize its inductance, and hence maximize its ability to communicate in the sub-4 MHz range which is not significantly attenuated by the human body.