I still do not fully understand what they are trying to do. Did Daniel want to detonate the bomb and just wipe out the island completely? Is the H-bomb supposed to counter the electro-magnetic discharge? I mean, it doesn't make a whole lot of sense.
Supposedly the energy was discharged, bad stuff happened, and the Swan station was built to keep it contained. However, Miles' dad seemed pretty surprised when Daniel told him about the possible catastrophe, but we saw that rat-bastard Radzinski already had a model for the Swan.
If the Swan was built to contain a disaster that had not happened, why was it already planned? And how the hell is a huge bomb any better?
This is more of a Michael Bay answer to the problem than that of a scientist. But what can you expect from an egghead who walks into an enemy camp waving a loaded gun?