Actually, I just noticed how redundant my original question was. What I mean is that asking if 'X can beat Y' is pointless, since it all depends on the specific circumstances. Experience, position, surprise, ship status, luck, etc. There is no flat all-encompassing rule for ship warfare, so logically there shouldn't be one for electronic warfare either. It would all depend on the situation, GM's decision, and perhaps dice rolls as Wes said.
But just one more question; The PANTHEON description lists it as "deity-like." Does that mean the AI nodes are all linked together to form one giant hyperintelligence? Or is it more bureaucratic (bigger overseer AI controlling the smaller, more numerous ones)? Or is it completely decentralized, like the internet where its practically unpoliced, and everyone manages their own servers/nodes? Because if it's the first one then any sort of attempt to hack it will virtually always lose, period, regardless of dice rolls.