Did you delete the Save folder after you activated FotRSU? That would be C:\Users \UserName \Documents \SH4 by default, unless you changed it with MultiSH4. If you did not empty the Save folder before playing FotRSU, you probably have a "mod soup" situation where you have part of what you had before, and part of FotRSU. The FotRSU mod has several changes from most other mods and stock, and the ship calls are NOT compatible between any of them, which would result in no traffic.
Run JSGME and click on the "Tasks..." link in the middle. Choose "Export activated mod list to --->" and then paste the results into your next post, whether you choose Clipboard or Text File...
