If I recall, the RPG's quite out there in some places too.
And I did have the chance to speak with one of the programmers before. He takes his Macross rather seriously.
But in the end, it's a game, not a collector's piece. Accuracy is less important than it being playable.
Hence the VF-1 lugs unlimited missiles and bullets, the missiles fired change by configuration, the battroid has a sniper rifle that can be charged up for a super shot, and diffrent VF-1s have diffrent stats.
BTW, according to Macross Compendium, the 1S DOES have "enhanced avionics identical to VF-1A's Block 12 design" and " improved FF-2001D engine with greater engine thrust".
So officially the VF-1S IS better than the other versions.