So the merging routes part is easy.  The hard part is routes with different heights.  I am trying to get two routes merged together, the difference is about 20-25 meters.  I've tried changing the altitude and it looks like it would work.  The issue is when I merge them the altitudes seem to combine there by forcing the routes back to their original height differences.  Is there any possible way to merge a route with out merging the altitude settings?
				
			