Just like "good writing comes from writing and not from good writing tools", good thinking doesn't come from good thinking tools. But tools can help you concentrate on the task at hand instead of the environment you're doing it in.
The creative congregation of the Church of Mac seems especially interested in which tools help in getting things done. Summing up many conversations I had on blogs, IM, Twitter and in real life (gasp!), I put together this mind map of the tools I use to collect ideas, thoughts as well as important documents I need to refer to.
In another article, I'll describe my work and data flow when I use those tools.
Take a look and please tell me in the comments what tools we have in common and what your recommendations are!