Currently, auto pickup has to be configured from the adom.cfg file, which is fine but seems awfully clunky, especially considering the upcoming steam release. I recommend making it configurable within the game, maybe from the settings menu? I picture a graphical menu with the name (and maybe picture) of each category, with buttons you can depress, and maybe a little green circle next to that category that lights up when you select it.

This is because I (and I think most) ADOM players use auto pickup, and it's a great feature, but unless you mess around with the .cfg file it's not accessible.