Despite using the desk for a year and a half, I couldn't stand at it for more than an hour or so without back pain. To me, the real benefit of the adjustable height desk was being able to raise it up to a comfortable height for sitting -- I could finally sit with my feet flat on the floor in front of me!
A few months later, after a company in the university's research park folded, we got to pick over the bones and grab some office furniture. I managed to get a rolling, armless, adjustable height drafting stool. The combination of the GeekDesk and that stool was nirvana as far as sitting in an office goes -- I was able to leave the desk at the same height whether I was standing or sitting on the stool, which made it easy to switch back and forth throughout the day.
One downside to the desk: since most people I worked with were shorter (sometimes significantly!) than me, I often had to temporarily lower my chair and desk so other people could easily see something on my computer screen. On the other hand, it was easy (and rather awesome) to have conversations with coworkers who were roughly the same height as me -- I just stood up, pushed the chair out of the way, and had room for a standing conversation with two other people who could all see the screen.
It took my about 3 weeks to get to that point. For the first few weeks, my feet hurt a lot. But at some point I passed a threshold and it pretty much stopped hurting altogether as long as I can walk around and shift my weight from one leg to the other a lot (I couldn't stand still all day).
And actually, the ability to take short breaks and walk around is something I really cherish. Removing the (small) barrier of needing to get up has really helped.
But you can not read too much into my experience report with the standing desk: I took up weightlifting at the same time I got my standing desk, and so it's hard for me to say which change was responsible for which improvement.