Probably LL was faced with pissing off ValJar or the new POTUSESS, and feared ValJar more.
They were mostly all on the same page. Hillary was to be publicly exonerated. LL maybe wanted to do things more "by the book" and skip the public announcement. She wasn't in tune with the plan, would have cringed at Comey making an announcement that was hers, so the visit would fix that - whether it became known or not.