"the build system is now effectively responsible for source control for some part of the project" Well, I think I've found your problem. :-/ I had a close cal

"the build system is now effectively responsible for source control for some part of the project" Well, I think I've found your problem. :-/ I had a close call with nearly installing/building some Java packages a couple of weeks ago, and due to reasons I eventually decided to try and find a different solution. Looks like the bullet I dodged was bigger than I thought.