My chickens do enjoy the extra height in their run, because they have things to climb on. They really enjoy getting up higher and looking around. It helps them see above the front fence line. They like to watch the neighbors across the road, when they're locked up.
I designed a chicken tractor with a short run to have a hinged frame for the top of the run. You can lift the top up and step in, if you need to catch a chicken or do some sort of servicing. It worked out great. Stooping is the pits.
I go in the run to catch a chicken, service the water, service the dust bath, pull an annoying weed, plant seeds, feed scratch or snacks, paint the coop, add sand, pick up the rare mislaid egg, visit the detainees during the hawk migration, shovel snow, level the surface for runoff or to fix something.
If it helps, I've never heard anyone say they wished they had built their run shorter. I have heard a lot of people say they wish they had built their run taller.