So, I followed its directions:
I made a file on my desktop named Data.
Inside, I followed the default directory: Meshes, scripts, sounds, textures, etc.
I then copied all files needed for my mod to function.
Next, I used Archive.exe, changed the directory path, and saved.
I started up the CK again, went to File/archive and upload to Steam.
All went well, and uploaded successfully. Players reported that the teleport spell worked, merchants and trainers worked and looked great. But now, I'm getting messages about all the mannequins not wearing armor, the storage chests ate their items, and the dragon priest mask busts ate their masks.
Now, it will take some time, but I can personally add each person as a friend, and walk them through spawning replacement items, but my concern now, is is this going to happen now, ever time I want to add something new? How can I upload all files needed, as well as not reset the mod in the process? I know. I know this is such a horrible noob question, but I am so overthingking this, that I made myself gun-shy on making the next move.