To answer your questions ...
I don't think the colour tones of the parts were caused by the damages and repairing done.
1. The dark tone of the fine is the light trick caused by the different direction the skin plates were riveted at the area. See the pics below.
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1a. Also the appearance of the area could be because of belonging to an another BG and repainting of the earlier markings there. For instance the 91st BG, 381st BG, 398th BG painted the fin with the red colour. The example below. But it is not the case I think.
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2. The darker colour of the fin leading adge also looks like the light trick on the metal sheets covering the area. However it is possible the leading edge was of the black coat because of the de-icing boot that was removed or overpainted for some reason. See the shot below and the first one above. Additionally you may notice the different tone of the fin.
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3. The dark panel of the dorsal fin fillet is the accessing panel just to the de-icing line and other cables/wires running through the fillet structure. What coulur ? ... JRD ... I would say .... in the English "How the hand gave" what means any paint there could be found at that moment by the maintenance crew. IMHO it looks like the red or just the Olive Drab/Khaki.
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the pic source: the net ,
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