Hey Jason,
When you create a new OOT module for a pybombs install, you don't need to create the folder in the pybombs/src directory.
Then when you do your cmake in the OOT module, you need to pass along the path to your target using the flag -DCMAKE_INSTALL_PREFIX=/path/to/target .
And if your target is in your personal directory (/home/jason/target here) you don't even need to run this as root.
So basically go back to your OOT module, delete your build directory (just to be safe) then start over like this:
mkdir build && cd build
cmake -DCMAKE_INSTALL_PREFIX=/home/jason/target ..
make