Is there a maximum reasonable size for a TiddlyWiki?

This depends very much on your usage:
http://tiddlywiki.org/wiki/Performance_Issues

Currently, the biggest TiddlyWiki* I'm aware of weighs in at 16 MB:
http://groups.google.com/group/tiddlywiki/t/bc12eb3a574ab230

Is it best to create several related or included files?

I'm afraid it's hard to give a general answer to that.
You might even consider using something like TiddlyWeb, as that allows combining individual tiddlers in very dynamic ways.

If I create several separate files is it possible to have them display
with different colors in the Primary File?

This is something we're doing with TiddlySpace (tiddlyspace.com), which is a hosted service based on TiddlyWeb (since it's entirely open source, so you also could set up your own tiddlyspace instance).

Don't want to discover later that I should have done things
differently, as data entry and references become extensive and
difficult to export and rebuild.

Can you provide some simple examples and outline of what you have in mind?


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