With current SonarQube LTS (5.6.x) and plugin version starting from 4.6 up to current latest released version 4.9 relative path specified in property "sonar.cfamily.build-wrapper-output" is interpreted relatively to each module directory. This is problematic for the case of Scanner for MSBuild, where easier to specify property once for all modules:
CPP-1755, i.e. in plugin versions from 2.3 to 4.6, this case worked because relative path was interpreted relatively to the working directory of scanner, which is in most cases a project directory. However was not working case when project directory is not the working directory of scanner.
Combination of plugin version 4.9 and SonarQube 6.4 is not affected because of