NDStool now can generate PassMe vhdl sourcecode and SRAM file from an nds rom file.
Here's the full Changelog.
Compiling the vhdl sourcecode requires Xilinx ISE, so I will look for a less tedious way to create a programming file since it's technically possible.
Xilinx project files and a readme can be found here.
I will soon update the nds rom database page with more info, functionality and download links for programming and SRAM files.