Of course, but these systems are installed and active with the intention of providing a safety barrier. If they are disabled while transiting jammed airspace, then they are not providing that safety barrier at that time, which is itself a vulnerability.
Besides, it is hard to determine when and where jamming will happen, and it can start and stop at any time. Imagine a truck driver trying to bypass their company tracking using a small jammer, and driving down the coastal highway near SFO. Any planes coming in for landing might lose GPS or even worse, get inaccurate results, but only for a moment or two. Is that a problem? It depends on exactly what the plane is doing in that moment and whether everything else is going right.