I'm not sure if this was a great solution, but it is what I went with.

The <EnableStaticWebAssetCompress/> tag didn't help..

I uninstalled the js libraries I had installed that were listed as conflicts. there were now new conflicts with the existing libraries.

I renamed the folders with the existing libraries.

I added the libraries off of a cdn, instead of running them locally. I don't think that this is absolutely required as I could have run from the renamed libraries.

Many thanks to everyone that helped. :-)