Er… yes?
> Sure, you can try to take it out during the journey, but that may be complicated by it being the highest g ship in existence for the Mars-Earth distance.
That's not really a complication, it's still taking months to make the trip, and while it might be "the highest g ship in existence" that's linear acceleration, it's not a nimble ship performing a tailside in space to avoid projectiles.
> Once/if it arrives, you have the same strategic problems you have if you build it in orbit.
With the pretty damn big difference that you've had several months head start knowing the think was incoming at high speed instead of it just dropping of your head more or less instantly.