I have sent a note to 'those who matter' on these two posts as I think they reflect the same design choices. It may well be that some things just won't work with relative paths and the developers knew that when they decided on the 'design feature set'. (my working theory)
So your concerns have been heard. There may be nothing to be done with the current version other than hand configuring or running the full version.
Besides the above I will do some research on my own. However, as I am a full time developer and an Admin/Leader on another Open Source project, I cannot say when I will be able to do 'my thing' on this topic.
Good Luck on our projects.