This bug entails a couple of build problems with Autotools. Sometimes, the build will run and then start again. Other times, a build will be issued and Autotools will do a make clean all which causes unnecessary churn.
A number of problems existed. The ManagedBuild project calls clean() when doing a full build and this attempts to remove the build directory. Thankfully, the ManagedMake project assumes the build directory is named the same as the configuration which is rarely true. The clean call is unnecessary and has been disabled in this circumstance. Fixes have been made so a UI clean will actually invoke make clean rather than attempt to delete the directory.