For example: serveCertificates.sh assumes the existence of a workspace named ~/catkin_ws_scavenger/ and then goes to a nonexistent subdirectory of bwi_logging, where it attempts to run a python module.

Does that module expect to write files into its current directory? If so, it should be using something like ~/.ros/bwi/bwi_virtour (which it must create, if necessary), similar to the way bwi_logging saves its files.

Also, I have some doubts that startKrExecution.sh is an appropriate way to launch other system components, except maybe as a convenience during development.