You can just copy one of the 'shp' files from a TMO ship and re-name it.
Disable your Mogami mod.
Look in your Data/Sea folder.
Open up one of the ship folders.
Look for the shp file. This is the file that SH4 displays on the Nav Map.
eg. for the Taihosan it is 'NKSCS_Taihosan_shp.dds'
Copy it into your Mogami folder.
Rename it to overwrite the Mogami shp file.
Re-enable your Mogami mod.
Job done