Ahahahaha, oh no, you're welcome and I'm sorry!
I do have an update to this that includes an underground subway system that I haven't finished polishing yet. I'd be happy to share those files and talk with you about the troubleshooting if that would be helpful, since I can't quite tell which parts of the existing train set are giving you trouble. My discord handle is the same as my handle here.
(I'm also more than happy to add even more pieces if you have ideas for stuff I should add =D My pixel art-making time is just a little all over the place since I'm job hunting.)