So I've started applying my bakes to my low poly mesh and organizing the UV. Everything is now on one material for the upper half of the ballista. It's pretty challenging managing all of these objects but it's gotten much easier as time has gone on to get the job done. I'm pleased with how well everything is going and while I still have a lot to learn its easy to see how far I've come since even this summer. I'm confident that my project will look good when I'm done with it.