I've also has an issue with the MVAM AI for one particular reason, ships using it start moving far too quickly when you use a game.
For instance with the DSC304 model in the Stargate pack, it utilises NanoFX 2.0 Blinkers, but as the ship accelerates as soon as the game loads, the HP doesn't line up with the ship and screws up all the locations of the HP properties on the model.
Is there a way to manipulate the MVAM AI so that it gives the ships the time they need to load the HP correctly?