In fairness, there is a major recession on both sides of the Atlantic and that's pretty much outside the control of EI. You aren't seeing much transatlantic expansion after OpenSkies, nothing like what was predicted.
The question is what Aer Lingus do when the world economy picks up. There's only a limited number of routes that can be sustained on Ireland-USA traffic alone, so they need to sort out their connections to the UK and Europe or acquire some smaller aircraft.
That is assuming they are still around then. Which is why they need to concentrate on cutting losses at the moment.
San Francisco, like LA, suffers because it has to survive on point to point traffic. There's nowhere beyond them to connect to.