The process is pretty straightforward.
1. Adjust the pano head for the entrance pupil. On my 35mm macro the entrance pupil moves from about 70mm from the sensor plane at 1:1 to 55 mm at 1:4.
2. Shoot either full manual or aperture priority with fixed WB.
3. The shooting order of the frames doesn't really matter, but it helps to be consistent. I usually start from the lower left, shoot the frame at the closest focus depth then continue shooting the same frame with greater focus depth until the desired DOF is done. My Olympus e330's LiveView allows me to set the focus point accurately, but it's still hard to make sure not to miss a spot. Once the frame is done, rotate horizontally to the next frame and repeat the shooting sequence from near to far. I usually reset the focus point to the near focus point before rotating to the next frame because the FOV changes pretty dramatically. After each horizontal row is completed, rotate vertically to the row and start from the left side.
4. Post processing workflow is to adjust all of the exposures in the RAW conversion (I use ACR) so they are fairly close.
5. Stack each frame
6. Stitch the panorama. I use PTAssembler for this. Output as cropped Tiff. If any of the frames are dramatically different in exposure or WB redo steps 4 & 5.
7. Manually blend seams at 100% to 200%. Enblend or Smartblend can also be used and will probably give better results on blue sky or other low contrast areas.
8. Do normal PP at this point for levels, curves, saturation, sharpening, etc.
I usually shoot outside in natural light, so there is lots of opportunity for failure like the light changing or a breeze moves the subject.
I'm working on a new pano head that will allow vertical and horizontal adjustments as well as the current depth adjustment. I'll post photos of it here once it's done.
I didn't think it was possible to stack successfully by moving the camera instead of focusing with the lens, so I'm looking forward to learning this technique from the members here.
p.s. A link posted by Max Lyons, author of PTAssembler, in this thread,
http://www.tawbaware.com/forum2/viewtopic.php?t=4677, lead me here.