It'll auto pick up if you use Le Bot's [BOA] Find The Runes. You have to be on the quest first though. You can just check your inventory or check the bottom left of the screen where all the chat is. If you got the runes, there'll be a message "Awe reputation increased". I've had a hard time farming and just got mine so best of luck to you!
The new ones stay bottom, the old ones go out of the screen. Just click NO to all the drops you dont want. Then just go kill another monster (skeletons are easy) and when you get another drop (bone dust), all the drops that were out of your screen will come back again. And just click NO to whatever you don't want and repeat.