After disabling creative mode, I still have higher running speed, instant mining, instant research, infinite items, and all the other traits from creative mode. I've tried turning the mod off and on multiple times, tried looking into the files, but I'm no good at that, and I can't find a way to fix it. Has anyone got any ideas?

Those are settings inside of vanilla factorio; disabling the mod doesn't change them, because the mod doesn't save those values or set them other than when they are initially turned on. If you want to disable them, you have to disable cheats using the cheat menu while CM is still enabled. Simply turning CM off does not disable cheats. Disabling the mod only turns off the cheats that require CM running to function.