Alan
A working shop has to be built around organization of all tools and supplies required for its intended purpose, that is, once the infrastructure to supply the tools is in place. Visible but organized storage is key.
We built an entirely new production shop a couple of years ago, and one of the biggest enhancements we made over our previous space was to put absolutely everything on casters. All workbenches, assembly table, bins, etc. Mobility is key to efficiency. Setting up the space for specific tasks quickly is critical.
Also, good lighting. And plenty of it, as well as airflow control and filtration.