Unfortunately, the file you've linked to is R4 Theme Creator Alice, which only outputs in R4 format, not R4i. I found it handy for creating the Icon screen and resizing some larger bmps to fit the DS screen, but the color.ini isn't compatible with the R4i menu system.
I've Googled as many different descriptions as I can think of and Alice is the only one that comes up - does this mean that there isn't a single R4i menu editor out there? Or am I missing something? (Which, to be honest, would be nothing new!)
Lynette