it varies from system to system. in the event of an outtage, your tank will drain how much water to the sump before it stops draining?
a tank with large surface area will need a larger buffer zone in the sump to accomidate for the water that will drain before the siphon stops. i used a 40 breeder as a sump for my 30 breeder. the baffles are about 4.5 inches from the surface.
some say to place the baffles according to your skimmers' height requirements, but i'd rather prop the skimmer up and have the extra water/depth for my refugium.
the baffles(i'm assuming you mean the bubble trap) on my sumps i kept about 1" apart, and the upper baffle 1" or so from the bottom(i used a piece of 3/4"pvc under it to hold it while the caulk dried).