Eventually, certainly, but you can put it off for a while without much trouble.
You can get 20 round drum magazines for 12 gauge shotguns, and keep hot-swapping 'em until your barrel overheats.
> Phalanx_CIWS
But that's 1980 technology. I bet a current GPU could outcompute it by orders of magnitude.
Range is definitely an issue with shotguns. On the other hand, you're dealing with low-speed drones, not enemy missiles.