Just thought I'd post a quick update about my issue. After doing further research on my problem I found out that it was going to be extremely difficult if not impossible to track down the specific issue which was causing my problem. Mainly because I didnt want to deal with the headaches i knew that would cause i just did a quick reinstall of windows 7 and then the first 3rd party app i installed was calibre and had no issues whatsoever. Have been using it for the past several days and have to say it is exactly what i had hoped for! Excellent way to organize and correctly tag all of my ebooks!
So i guess long story short, reinstall your OS if you cant install calibre? Thats horrible advice! Try to find an alternate solution but if this is the only one that works i promise calibre is worth it.