So, it's taken some time, but I've finally managed to get the whole thing scanned in, and this time I didn't have to piece it all together. Some of the details are faded in this version, but it still works.
After getting so fedup with trying to scan another double in, I went down to my local Staples and had them scan it in with their Large Format scanner. Now all the details lineup propoerly, and there's no seperation line aside from what was on the original pages.
Now if I can just get over my fear of inking this puppy up, and hopefully get it colored before the summer.