How are you launching Tiddlywiki. What command are you using? What directory are you in?
Did you restart the server? It must be restarted to see new tiddlers.
Normally, if you follow the install directions, tiddlers will be in a folder below the TW folder you created. So if you are in your home directory (~) and your new tiddlywiki is in a sub-folder "mynewwiki" then the command would be
tiddlywiki mynewwiki --server
(there are variations depending on setup)
And your tiddlers would appear in
mynewwiki/tiddlers
So it's odd when you say that your tiddlers are appearing in "the Tiddlywiki" folder.
Good luck
-- Mark