Kuesco - sounds like a really nice utility.
I found another one here but never tried it.
Amigauser, many options exist. You can configure dopus yourself and add/remove drives by using its built in configuration screen - accessed via the top left hand menu in dopus.
You can call any hard drive directories you add in winuae "DH1:" or "PC:" as dopus has already been setup to recognise these names (see below).
Or you can access any winuae hardrive you add by right clicking on the "Root" button or the little box labelled "S" inbetween all the slider bars.
It sounds to me that you are fairly new to WinUAE. If so, perhaps reading an online guide will help, such as http://guide.abime.net/