There is only one thing I am aware of the mod does to the FFG/Helo interaction that is unintentional is the assignment of the MK54 to the AI helo prevents the torpedo from being dropped on a waypoint from the ASTAC station.
The MK50's can still be dropped both from the Nav Map and the ASTAC station on a waypoint, but the Mk54 can only be dropped on the Nav Map using the right click menu. If you wish to drop on a point a bit away from the actual contact, you can order it to drop on a "dummy contact" that you add manually to the Nav Map.
The reason this happens is that the interface doesn't totally like the fact that the Mk46 has been replaced with the Mk54, but it still allows it.
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LW

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