I was contacted by Adobe regarding my error and I was informed that I was running two differen versions of jQuery at the same time which is a no, no. jQuery does not like to have multiple versions loaded at the same time, but if you needed to you could always run one after another, but it would take longer for the page to load. In my case I changed the embeded code in my lightbox under the "Join Our Mailing List". The embeded code uses jQuery version 1.4.4 while the jQuery version that Muse uses is version 1.8.3. To resolve this problem I simply change the 1.4.4 to being 1.8.3. While jQuery is not always backwards compatible, I was lucky on this item as it appears to be backwards compatiable.
I would also like to note that I had originally placed my CSS for this code inline with the coding, but I then removed it and placed it in the head as this helped with some of the problems as well. It is always better to create seperate CSS and .js files and then have your code reference these files. I will work on this in the coming days.