Unless you are permanently leaving bags on the bike, I would not worry about a little gap between bags and bike. Clearance is a "good" thing. Myself....I only put the hard bags on the bike when going on long trips. The ease of install/removal of the easy or ghost brackets really makes them the better choice for me. I love being able to travel, get to a hotel room, and with a key turn, get rid of the bags. AND the docking hardware left over, when the bags are not on the bike, is really not noticeable unless you know what you are looking for.
I have had throw overs, Under seaters, supported, unsuported, leather and pleather bags in the past, and they have always fallen short in one way or another.
Loaded up for a trip:
Normal riding config: