Bingowings said:

I don't get that, surely V'ger would have stored Nero, his crew and his ship in the same fashion as the Klingons and the Starfleet vessels thus making for a much shorter Star Trek 11?

My personal take on the Borg was that V'ger sent a final message back to the machine planet (via the Black Hole therefore backwards in time) telling them of the benefits of merging carbon units with machines only to have the message taken too literally, pretty close to the explanation given in the wee animation there.

Other comics establish that Nero's ship was constructed using tamed future Borg technology, therefore his ship would probably been seen as a friendly to V'ger.

Neither here nor there, unless the FFE V'ger has stuff from alternate universes. ;-)

I like your explanation that the machines should merge with carbon units and they took it literally! LOL