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The keyboard hotkeys work fine, it is just the mouse hotkeys. I used the same file to install both of them so the versions should be the same. I will try the uninstalling and reinstalling.
Unfortunately none of the troubleshooting portions I saw in that link pertain to my issue. Also, my secondary is still windows 7 and my primary is Windows 10, would this be a known cause of the issue? If so is there a work around.
I have tried to setup my secondary mouse buttons (the two on the left side of my mouse that are triggered with my thumb) to take me to and from my second computer. The hotkeys work fine however, when I come back to my primary I can no longer click on anything. If I got back to the secondary then I can still manipulate it but again not the primary when switching back.