In the addUser method there is following code containing error:

// Default groups

String[] defaultGroupNames = PrefsPropsUtil.getStringArray(
companyId, PropsKeys.ADMIN_DEFAULT_GROUP_NAMES, StringPool.NEW_LINE,
PropsValues.ADMIN_DEFAULT_GROUP_NAMES);

long[] groupIds = new long[defaultGroupNames.length];

for (int i = 0; i < defaultGroupNames.length; i++) {
try {
Group group = groupFinder.findByC_N(
companyId, defaultGroupNames[i]);

groupIds[i] = group.getGroupId();
}
catch (NoSuchGroupException nsge) {
}
}

groupLocalService.addUserGroups(userId, groupIds);

.
In teh case at least one default Group (default community specified in the Enterprise Admin Portlet) does not exist, then the array will be generated, whcih contains at least one group Id (array item) equal to 0. The the method
groupLocalService.addUserGroups(userId, groupIds);
throws an exeption "Group Id with Id 0 does ot exist" and the rest of the method is skipped - there are initialized no roles, no user groups, no default webs, no e-mail is sent.

The solutio is simple - instead of usig array use List, like by the roles and user groups.