So, for whatever reason, empty folders were created around my repo after making a push to Github using Git Bash. I simply opened git bash and used the cd command until reaching my current repository on my local computer. Then, I pushed the repo. When looking on github, my directory structure now looks like this:
Documents Visual Studio 2017 Projects Repo folder Repo Contents etc.. Thankfully, I am able to just click on the outer folder one time and it takes me all the way inside Repo folder. However, this is confusing and unnecessary for my purposes, and I do not want to have to click on any folders to see the Repo contents. Is there a way to get rid of all of these empty outer folders so that I can just see the Repo Contents?
Edit after fix to potentially help others with the same problem: I was originally using CodeBlocks and then switched to Visual Studio by creating a new project and then copy and pasting the code. I pushed the repo in the new folder without doing a git init. This left the .git folder in the CodeBlocks folder. If you change IDEs, be sure to do a git init where the new files are located. It seems the folders all the way up to Documents were included in the repo push since this folder was the "least common" ancestor, so to speak, of both the old and new directory. It did not seem right when all the files in my computer's Documents directory showed up as unstaged files. Now I know why!