I have identified the problem that is bringing up false positives of locations. Not really sure why it happened as the new code effectively means the same thing, it's just written differently. Oh well. I'll try my hand at adding another feature or two and bring out another release some time today. Worst case scenario is there will at least be a fully functional version out that correctly identifies found sites.
Thats wierd, I already have the code in place to handle that and after trying on vanilla 40d (dwarfort.exe as opposed to the 40d2+ Dwarf Fortress.exe) and it worked fine
- Just to be sure, what version are you using?
Wait.. it's probably my game being altered that's causing it (it brings up the F9 screen and flickers). However, Lamp's advice helped solve my exe problem. Sorry for wasting your time. Though, just in case, here's the init: -snip-
Honestly not sure what is going on there. Using your init proved fatal to my little program. I'll look into it further, though nothing is really jumping out at me. Wierd.
Whatever you did, it is now working on my vista machine so I am really happy.
I am glad that you are spending so much time and effort to make this work. I see great potential from this little program and appreciate the effort you are putting into making it work for everyone and how you are taking all of our pestering in stride. Kudos to GFXiNXS *thumbsup* 
Heh, it's really no trouble. My line of work has me used to nitpicking and pestering from all sides

That, and I hate the idea of putting out a program that only wastes peoples time. I don't like that kind of image being associated with me.
Hopefully with the brunt of issues behind me, I can start making this into something more than just an automation script running around the bare-bones feature finder of vanilla DF
EDIT: Currently working on a simple addition. Option to have the search run indefinately (until closed) and put all matching sites into their own directory. Each time you run the program it'll make a new scan folder and put matching regions in there, along with a text file descripting each region's features and contents. This version should also handle having FPS either on or off.