He registered as a foreign LLC with the CA secretary of state, like he should since he's doing business in CA and the LLC was formed somewhere else.   

Do they issue a state ID number for SMLLCs (I cant remember)?  If they did, that would go on the 568 as well as the Federal EIN.

Read through that long list of questions on the 568, it may be one of those questions, in the grand scheme of things, I don't think it matters to FTB where he came from, as long as he files a return and they get their money.