Luckily D is a master with cardboard and a glue gun, so we pulled everything out that we wanted available and he corralled it all into triple layer storage. It is roughly arranged so that the items we use most often are closest to the top. You have to remove each layer in order to get down to the next, of course, but it is absolutely the best solution for us.
He made custom inserts for our shallow drawers as well, which makes a world of difference in keeping everything easy to access. You'd think cardboard wouldn't be strong enough but we know it holds up because he did this for our last kitchen as well. There are major advantages to living with an architect. All those model building skills you suffer to learn really do have practical applications.