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Spits, especially in Duxford, do change their colors very often, which can make it extremely difficult to tell what is "real" and what isn't. Our B-25 was restored there and it too changed paint, from an RCAF training airplane it became 'Grumpy,' the RAF B-25 that flew the most combat missions of WWII. We can't imagine her as anything else now, but it's not exactly an authentic paint job.
I do believe that is the BBMF bird around 2003. One clue is the big white modern helmet the pilot is wearing. Most Spitfire owners try to wear something a little more authentic to the time period, for instance the pilot of Historic Flight's Spitfire has a leather helmet with a hard shell inside, it's a balancing act between safety and authenticity. The BBMF however wear RAF helmets, and all of the other photos of MK356 flying during that time period show a white helmeted pilot. Add to this the fact that there are no photos of an RCAF painted 21 V after the BBMF bird changed its spots...
As for the rudder, certainly the surface area of it may be different depending on its shape, but the actual mounting hardware and size/shape of the vertical stabilizer remain the same, as far as I know no modifications to the airframe are required to switch between the two.