I think some of your issues relate directly to the use of the Gradient Editor. For reference, :tool_gradient: was intended to make the Gradient Editor redundant. You might find working with gradients easier if you ignore the Gradient Editor and get used to using the gradient tool. just to comment, ...

It goes fine by just drag-and-dropping files now. Do you prefer Fireworks library style?

...what the flow chart is, exactly? /me thinks of a bad kind of a mindmap.. Examples and sketches to be here. But, in general - SVG charting is the thing that should be done with XML+XSLT, not by SVG only. Open the SVG template - edit it - call the plugin that would merge SVG + XSLT templates togeth...