Does she need to be at UCSF Parnassus or Mission Bay? Either way, there are still housing options at the edges that actually let you get to UCSF quickly and cheaply (like Sunset/Richmond for Parnassus, or Lower Dogpatch for Mission Bay).

For a reasonable place in a good location, you'll end up at about $3000/month (there's a 1 bdrm at 246 2nd St). That's definitely expensive compared to nationwide averages, but you won't need a car if you both work in the city. As another poster mentioned, UCSF at Mission Bay (and elsewhere actually) has lots of purpose built housing at below market rates. Contact them!