Some of these areas (Redwood City in this case) are next to major Caltrain stations with Baby Bullet stops. But they're also convenient (technically speaking) for going on 101S/N to work, etc.
That's part of why I'd prefer living on the peninsula than in downtown SF. Weather is consistently better in the summer months. More space/less people (except for rush hour traffic). More parks for recreation. Pools aren't necessarily a deal breaker for me, but it's a nice extra.
A shiny high-rise is nice but unless you can afford a penthouse or similar you're probably looking at a small unit. Less space, fewer parks, more people everywhere (tourists, homeless, etc.)
The downtown has a solid layout though and lots of room for growth. The RWC downtown has the potential for offering a lot more than some neighboring downtowns that are less dense and could be a nice hybrid between SF and more "suburban" Peninsula cities.