The key to a nice clean shop is really simple, even so, it took me about 30 years to figure it out.
Put up all your tools and equipment at the end of the day even if you are going to use the same tools the next day. Next, spend about 5 minutes with a broom, dust pan and shop vac getting up the wood chips and sawdust off the floor and work bench.
It sure is nice to walk into a clean, organized shop the next day.