Do should use user assigned icon

The same goes for using (Super) + Spacebar to run an installed program. Even if it has a custom icon, Do will show it as having the basic icon.

I love the idea of drag-and-drop dock customization, which really beats the pants off AWN. ^.^; I'd just like to be able to keep my custom icons when doing so.

This idea is great, however as I see it (with version 0.8.2) Docky doesn't behave as a quick launch bar yet. (Like in Windows, pardon me :-)
If I add applications through the finder, that's OK, they stay there until I resize Docky to be smaller, then a few icons that won't fit, disappear. When I resize Docky again to be bigger, those icons that were cut off in the smaller version, never come back, but I get back different icons. This is a normal behavior if the applications listed in Docky are not added by the user, but by some automatism.
But drag&dropping icons to Docky means customizing the application list, where disappearing icons (on resize) would be an undesired effect.
I like this idea, because that is the way I use Docky now. I added my preferred applications, and never resize Docky (only to be bigger). That way my icons stay on the same place, and my desktop stays clean. To be honest, I rarely use the Search function, but even without that Docky works better for me than AWN.
I would split Docky into 3 sections, the first would be the quick launch bar, the second would be the "previously used" apps/functions, or an automatic list, and the 3rd would be the plugins.