I have used the selleys glass silicone to glue rocks and it seems ok. Sticks a lot better to some rocks than others. I find it works quite well with smooth river stones as long as they are really clean.
About the drill method, you really need an electrical 240V drill, preferably with a hammer setting and a using masonary bit. I know when I was doing drilling the rocks I had, I was using a hammer drill etc and it was still pretty tough going. I didn't even bother trying with my 12V hand held drill as it probably would have only made a dent, like you have probably found with your 9.6V.