LAST EDITED ON Mar-10-04 AT 07:13 AM (CDT) Great question! Hope to get some new ideas from some reply's myself...
If I'm scratch building, I basically cut out a "kit" first. If it's a kit, I go to the next step...
From there I make my own uncovered "ARF".
I usually like to build the wing first, for some odd reason. It's a mental thing, I feel like I've really started something when the wing is done I guess.
I always do a floating belcrank. Then the Flaps and Elevator. Next build the motor crutch, drill it for the engine, the fuse doublers get laminated to the fuse sides and build the fuse in my jig next.
The fuse is the last major assembly. I tack on the top block and shape it. Pull it back off, hollow the block, install the engine, get out the incidence meter and set Zero Degree to the prop shaft, install the wing at Zero Deg relative to the prop shaft.
Most of the time I choose to rough out the cowl here. Why? I don't know!
I probably spend more time next than on anything, and work the control geometry to the elevator until I'm happy, installed the stab on my Legacy at 1/2 deg positive incidence last week, man, those incidence meters are too cool.
Make a final commitment to the controls,(based on self doubt and second guessing the previous work already done) put some garage door opener white grease on the pivots, and final glue the top blocks and constantly re-check the stab for tilt when glue is drying. Have learned that stab tilt sneaks in usually when closing up a fuse. Never force anything with weights, always cut and shim. Forced fits will spring back eventually or push something else out of alignment!
Landing gear mount, if on the fuse, then tail wheel & bottom block or sheet. Vertical fin goes last.
And for some even more bizarre reason, the very last thing I do, after covering and paint is wrap the stinking leadouts. Anybody else afflicted with this malady? I think it's because I shove old fuel tubing over them while I paint to keep them clean.
Oh, and I often forget to put the tank plumbing on the fuse too! (like I just did now, while typing this)What a pain. If you forget and don't want to mess up the paint job too badly, sharpen some brass tubing and make a clean hole. Oh, and when you mount your intermediary tubing DONT USE THIN CA from the inside, it will whick to the outside and screw up your paint, and can even run down the side of your fuse and make a run almost impossable to sand out. Don't ask... But epoxy works best, or slow/thick zap.
Probably nothing new here, but someone had to go first. 
Eric Viglione
PS: I am one of those that has to clean as I go. Probably a form of procrastination. Also, it gives me time to think through the next step. But also, look at the pile of wood I removed with my new Exacto Router blade, how could I work with that pile left there? Heh...