FlexiCapture 12 project isn't shown on verification or scanning station under tenant. All corresponding settings in the Administration & Monitoring console are applied.
Starting with FlexiCapture 12 R3U4 similar issues can be repaired by command of FCAdminTools RepairProject:
/Project=http://<server name>#<tenant name>/<project id> /U=<user name> /P=<password>
Admin credentials must be specified in the command text. Not credentials of the user who doesn't see the project.