I finally found the program I was looking for in onOne Software's Mask Pro, which I finally had a chance to ask some questions about at ImagingUSA. One of the features is that you can choose colors to drop and colors to keep, then you brush the "drop" colors away with ease. The software is very easy to use and more importantly is quite reasonably priced. If you are looking for a good masking program I HIGHLY recommend it, but I think the difference in the two photos alone speaks to how well the program works.
Just like the new Judson's Candy Factory shot, I won't delve too much in to the details of Mission San Juan as I talked briefly about it in my original blog post (located here). If you visit San Antonio I recommend taking the time to see the other missions (San Jose, Concepción, and San Juan) even though they are a bit of a drive, each of the missions I feel are much more interesting and photogenic than the Alamo.
Please feel free to leave any comments or feedback on this photo. Clicking on the photo takes you to my online gallery hosted at smugmug where you can view this (and other photos I have taken) in various sizes. Thanks for stopping by!
Mission San Juan - with a new sky
Original Mission San Juan
(NOTE: The photos are slightly different because I also reprocessed the shot entirely again from the original brackets. I have more tools and experience since I processed the original shot, I think the new one has a better representation of natural coloring in it)