That is pretty easy to fix. Create a "Cakewalk Projects" directory on the other drive (i.e. the one that does not have the OS and SONAR app on it). Open the existing project and use "Save-as" to save the project into a new directory under "Cakewalk Projects" making sure to have "Copy all audio with project" checked. This will create per-project folders with the audio in the correct place. When you are done and verified, delete all the old stuff.