I would prefer for Dwarves to keep the features they have for the most part (I will admit that as much as I love the shops, they are happier with humans), but I concur with the idea to make the dwarf special workshops upgrade to new buildings.
Also, there are some buildings that could be consolidated, such as the Greatforge, Armory, and Weaponry. Do those really need to be three buildings? How about the Crucible and the Metallurgist?
That said, I am definitely a veteran. I was one of the very first Masterwork users waaay back in the day, so I have been able to keep up with the updates. I appreciate that the newcomers could be a bit overwhelmed, especially if they aren't Vanilla Veterans. I feel that there should be prominent GUI options for the dwarves to be EITHER Beginner or Advanced, depending on preference. Having both races be active at the same time would lead to problems for the beginners, I feel.
Also, on a personal note, could you bring Magmalings back? Magma Traps are fine as, well, traps, but trying to fill a reservoir with them to keep my forges hot is astonishingly dangerous. Like, the magma phases through walls and floods my fortress. Just another day at the glorious Mountainhome of Knifeballs, I suppose.