Some places to look:

https://rawgit.com/erwanm/tw-aggregator/master/tw-community-search.html - 
This is a wiki that lets you search through a bunch of reference wikis, so 
searching for a topic here is a good way to find them, it also lists what 
are presumably the most commonly used reference wikis.

http://tiddlywiki.com/#Reference - documentation on the main site

http://inmysocks.tiddlyspot.com - My reference site (because I have to 
promote myself :p), searchable at the above link.

http://tb5.tiddlyspot.com/#Welcome - Probably the most complete and indepth 
reference available, also searchable at the above link

The only centralized list of themes I know about is on the main site, we 
are working on getting a list of community made themes together. 
Unfortunately aside from the community search I don't know of any lists.

Moving the sidebar from one side to the other is a more involved process 
than you may expect, these two are probably your best bet for the moment: 
http://tw5topleft.tiddlyspot.com/ and http://leftbar.tiddlyspot.com/ or if 
you want something different that may take more knowledge to set up the way 
you want, I made this http://ooktech.com/iconmenus/

Do you want the main menu in the side bar or in a normal tiddler? If you 
make a tiddler that lists the tiddlers you want for your main menu and give 
it the tag $:/tags/SideBar it will show up as a tab in the sidebar.

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