Hey Rebecca,
To reset expectations here, we are limited in the support that we are able to provide for conflicts due to customizations or theme conflicts. I have tested the entire file, however with the conflicts due to not having all of the dependencies required as well as not having the DOM elements in my theme that are used as targets for many of these functions, it definitely wouldn’t have been an accurate test.
The best approach at this point is to narrow in on the exact conflicts here. Have you had a chance to disable each function individually within that file? You did mention the toggle functions, however even for some of those I am seeing references to “Waypoints” in those that do add an extra potential layer of conflict.
I apologize I can’t give you a direct answer here but hopefully this helps to get you pointed in the right direction.
Thanks!