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I find IPE to be a life-savior when it comes to generating physics illustrations which come with their share of math toppings. The editor has nice utilities for latching on to the boundaries, intersection, center etc of geometric figures. The spline tool is the best I have seen anywhere. Layers are handled with grace. LaTeX is rendered instantly. It is very easy to produce a multipage document. What more can one possibly want?
Inkscape - Inkscape is a free, open source professional vector graphics editor for Windows, Mac OS X and Linux.
TiddlyMap - An interactive concept- and mind-mapping plugin for the personal note-taking software TiddlyWiki based on the Vis.js library. It's free and open-source!
PGF and TikZ - PGF/TikZ is a tandem of languages for producing vector graphics from a geometric/algebraic...
Wisdomap - Wisdomap Medicine is a study aid that helps medical students create differential diagnoses and suitable management plans from a presenting complaint and structured revision notes.
LaTeXDraw - LaTeXDraw is a graphical drawing editor for LaTeX.
IOctopus - IOctopus is an online mind map service for a dive deep into the mind for the best ideas.