Just some quick notes for fixing up Texclipse to use LuaTex 2016.
1. Remove the --src-specials option from the Build options.
2. Add the following 2 lines as early as you can in your document:
"\usepackage{luatex85}
\def\pgfsysdriver{pgfsys-pdftex.def}"
3. Font paths don't appear to be supported in Windows. Instead copy the fonts into the fonts directory.