Timely article indeed. I’ve been playing with the shop layout tool on Grizzly’s website (http://www.grizzly.com/workshopplanner) which helps you see how tools fit in a specific shop size. However, your insight and experience really helps with ergonomic considerations. When I first built my shop, the first thing I did was installing a wall mounted work bench – as my fore fathers had all done – Big Mistake! Soon-to-be project: ripping it out and building a mobile work bench on wheels (like the one you have pictured).
Not long ago, I needed to make some angled wood parts to build a new soffit on my garage. I didn’t have the customary tool for the job, but I had some steel joining plates. I screwed through one of the holes in the plate, set my angle, then added another screw to lock the angle. I could then use it as a template to mark all the pieces at the same angle and cut them with my circular saw. — Ryan Bartsch
Since most of your assembly will be done on the assembly table, it just makes sense to have your clamps nearby. If you’re short on wall space, try a rolling clamp cart! If you use your workbench for assembly, keep your clamps near the workbench. Check out these two helpful articles for clamp racks: A Simple Utilitarian Clamp Rack and A Parallel Clamp Rack.
Usually ducting is well covered and one of the first things considered, however, most people initially neglect clean up when designing shops. With growth, I have a very cluttered shop that makes pulling shop vacs around frustrating especially if you’re at the wrong end of a 5m flexible hose without having to struggle with the vac (the practice of in no doubt exacerbated by those ridiculous vacuuming ads on TV). As my setup is retro fitted, it may not be pretty as it is ducted overhead, but it is productive. I have a centralised heavy duty ‘shop vac’ (rigged with a Dust Deputy) and 50mm stormwater piping radiating to selective parts (corners) of the workshop. I use 50mm water diverters to act as blast-gates to control the flow of air (I have a bank of them running down one full side of the workshop spaced about 5m apart). When I need to clean a part of the shop I plug the vac into the appropriate overhead vent, organise the diverters and attach a 5m flexible hose to the working end. I have the vac on a remote (one of those that control power points – all my dust extraction is controlled by these – after modifying any proprietary mag switches) and I can vacuum any part of my workshop without having to go and manually switch the vac on. I have bought some cheap off market flexible hoses and spread them at the extremities of the workshop. Each outlet will accept the hose. Hint – I bought a fairly low end 3D printer ($800 (Aust)) and I can print any sized coupling to accommodate all those non-standard ‘shop vac’ hoses/fittings to accept my proprietary shop vac accessories. Duct tape is now reserved for the few threaded non-standard couplings.
For the next step up in convenience, consider adding a dedicated beverage cooler to your workshop as well. Though many people set up an old refrigerator in the garage for extra soda and beer, a dedicated mini-fridge will help you save on electricity, since new models are far more efficient than old ones. You can pack your beverage cooler with your favorite soft drinks for a pick-me-up while you work or use it to store a lunch to enjoy on a break —all without tracking dirt and or grease into your clean kitchen.
There are benefits to either approach. Sharing a common wall with your house can require some careful soundproofing but can reduce heat loss and exterior fin­ishing costs like siding. A shop located in an addition is more likely to be allowed to have living space or storage space above it, and it may be easier to make use of the existing plumbing and electri­cal and heating systems of your home to service your shop space. Another advantage of an addition is not having to run to an outbuilding in minus-30-degree weather or a summer downpour.

My hand tools are stored in a cabinet built into my bench but my shop supplies, air tools, and a plethora of “misc stuff” is in a cabinet on the other side of the shop, and my clamps are mounted on a wall adjacent to my bench, where conventional wisdom says tools should be. I just like it that way. I run my DC overhead and drop down… because my floor is on a slab. My bandsaw is mobile so I can pull it out of a semi-alcove for resawing, otherwise it stays in place for small operations (20″ bandsaws are cumbersome to move, even on leveling casters).
Click the image at right, and start building the ideal workflow at the bottom where you see the first red arrow. This arrow crosses through one roll-up door of a typical two-car garage. Note that if the right-hand window were not present, you could place lumber storage closer to the entrance, which would also allow for easier passage onto the jointer. Work flows from the jointer to the planer and the table saw, then ideally onto an outfeed table near position #2 in the diagram. From #2, proceed left to the assembly area (pictured below).
Tape measure: I know this isn’t a power tool, but it is the one tool that you should always have with you. It is a pet peeve of mine – if you are planning on building something, or you are actually building it, have a tape measure with you. If you are in the shop, on the job site, or even at Home Depot make sure you have a tape measure with you or at least one very handy (Home Depot probably isn’t the best example, since they have them widely available, but you get the point). Without a tape measure, not much beyond rough work can get done.
In my shop I use a large number of Jorgenson F-clamps. I use many of the small clamps, the most useful being the 12" version. Large F-clamps are essential for cinching down parts on bending forms. I also like aluminum bar clamps because they are much lighter than steel clamps, and therefore less likely to damage a carcase should you bang into the wood dur­ing a glue-up.
I looked around at many versions of Taiwanese drill presses. I ended up purchasing the Ridgid DP15501 15" drill press because I liked the way the quill stop was made, the work light, key stor­age, and the easy access to the belt change system. This machine was also on sale when I needed it, so that made it a slam dunk. Choose the one that suits you, as they’re all very similar. The table is large enough, and the distance to the column is large enough to allow you to do most anything a small shop needs. 
The beauty of a portable A/C unit is that you don’t have to heft it into a window and block off a valuable source of fresh air for keeping paint fumes at bay. Instead, choose a model with a low profile that you can tuck under a table or against a wall when not in use — a model with casters for maximum maneuverability is ideal. Choose a high-powered unit that will condition at least 400 square feet of space and move it where you need it for maximum comfort as you work.

If your table saw is near a wall and your shop is fairly narrow, positioning the jointer and planer against the opposite wall is reasonable, as shown in option 2 in the illustration. If the shop isn’t long enough to accommodate long workpieces, try to put these machines near an operable doorway, as shown in the illustration and in the photo of Doug Warren’s shop.