Rick, I've done this a bit, using CS5, so I'll give you some pointers from what I've learned.


You mentioned flowers. How did you shoot the flowers? Horizontally? From a "top down, looking into the flower?"


For macro shots, most people will shoot down, into the flower. Depending on what your f/stop is, and how close you are to the flower, you may have to take many shots.


The technique I use is as follows: tripod mount your camera. Use a remote switch for shutter release. Put the lens in manual focus (IS off). I use the viewfinder for focus, then find the closest portion of the scene (if a flower, the top petal or similar part of the flower). Take a shot. Then, manually refocus further into the flower. Take another shot. Continue this for as far as you'd like the flower to be in focus.


Then, in CS5, open all the images (I shoot RAW, so I'll open the images and do minor adjustments, such as lens corrections, exposure (if needed), etc., then open them in CS5.


Run a script. File, Scripts, Load files into stack. When the window opens, choose "add open files" and be sure to check the box that says to attempt to align the images.


When they've finished loading, select them all, then Edit, Auto-Blend Layers. You'll choose the option that is not "panorama."


CS5 will find the OOF areas, then display the various images in the stack. Then, "Flatten layers." This should give you your final stacked image.


At this point, you will see your image with some fringes of blurriness, but this is easily removed by cropping the image slightly.


After that, do some further adjustments on the image (sharpen, etc), and your image should be ready for saving.


For multiple images, I usually choose f/5 or f/4, if the lens can handle it.