Well, I figured this out a few months ago and want to update this post. The problem, in my case, was if I deleted a file on the iMac and/or iOS device then it would put it in the "recently deleted" folder on that device but still upload it on the other device(s) as a not deleted file. So, what I had to do was go in the recently deleted folder and empty it, then that would stop files from being uploaded again to my other device(s).