Install after TMO if you are using the TMO version. It overwrites the TMO roster files and texture files.
If you are using the non TMO version I would guess pretty late in the install order
(Please note I have not made the TMO and non TMO versions yet, but I will be
)
I am not sure about RSRD compatibility yet - I have not looked at the RSRD roster files
Personally I would like to be in port when installing it.
If it was just textures it would probably be fine to enable anytime.
But from reading old threads I have a feeling when you start a patrol it loads all the coming shipping layer, so I do not know what would happen if you then went ahead and overwrote the roster files mid patrol.
This is just a wild assed guess
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