Where you see multiple files they are actually different versions of the program with the highest numbered one being the newest version (which is the only one you would need).
The process to follow to test this from scratch along with the all of the software can be found in an earler post (that is updated along with the other one so you do not need both)...
MediaPortal Forum - View Single Post - Multi-disk Changer
Let me know if you have any problems. Remember to test on a few before you start working on a large number, since a big part of the process is actually getting Metadata you will find that if you jump in with 200 or more you will be spending hours 'at it'. With holiday season coming up you may find yourself in the dog house with family if you play with this all day...