San Francisco is small enough to walk, if you do not mind the hills. Two days is a good start.
Getting there
The train runs from the airport to downtown in thirty minutes.
Where to stay
The Mission or North Beach, both full of cafés.
What I would do differently
I would walk across the bridge from south to north, then take the ferry back.
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Prices in this guide are what I paid. They move every season, so use them as a rough guide.