I haven't done any that are bigger than two sheets of transperancy, but what I did was make the width of my image 11 inches since that is as wide as the transperancy can be. I made the height as big as I needed it to be. Then I created my image to fit that width. Then cropped the image to 8.5x11, and made sure to make the 11 inches go from one side to the other. I cropped it on the top of the image the first time, saved that file, then undid that crop and cropped again using the bottom part of the image the 2nd time. The middle part of the image ends up on both prints so you can line them up.
This may be clear as mud.
This may be clear as mud.