I can already see a creationist on the news saying scientists found GOD.
Realy a bad name for a particle in my opinion.
Other equally-bad options abound.
"Scientists worship subatomic particles! See, science is a religion too!"
etc.
Calling the Higgs Boson "the GOD Particle" will cause perhaps even more misunderstandings than naming the expansion model of the Universe the "Big Bang Theory." The information conveyed to a scientist or educated layperson by these sorts of names is not at all the same as the connotation for Joe Blow reading a headline in the newspaper.
But it's catchy, and easily attracts attention especially in the media, so it'll stick, regardless of the inaccurate information it conveys to most people.