That's interesting.
My JTD always had a problem aligning the mark on the pulley with the pointer on the head. On mine the mark on the pulley was always slightly left of the mark. It also seems that someone once tried to tighten the pulley with the mark held over to the right, which of course isn't possible because the key on the back of the pulley is supposed to fit into a slot on the cam-shaft.. and so tightening it up with the key not completely in the slot broke off a piece of the key on my pulley, so then it had even more "float" in it.
This "float" did let me rotate the pulley clockwise so that the cam pulley finally aligned with the mark.. but when I started the engine it really wasn't as happy as with the mark in the original position (that is, the pulley and the mark were about half a tooth out) so I tended to leave the timing exactly as it came off, even though the marks didn't line up.
I did eventually buy a new pulley with an intact locating key and the mark on that new pulley lined up better with the mark on the crankcase, but still not perfect. Obviously the mark on the head is actually just moulded onto a piece of plastic, so it could be deformed slightly... I gave up worrying about the marks and now just lock the crank and as long as the camshaft doesn't move, pretty much just fit the pulley back onto the camshaft 1/4 to 1/3 of a tooth out.
I dunno what happened to yours.. since the key on the pulley should prevent anyone fitting the pulley 180 degrees out, as your photos appear to show? But the slot on the camshaft might go all the way across (I can't remember) so it's possible someone fitted the pulley "upside down" in the past... but then the TDC sensor would "miss" the timing slot (your picture 6) and the injection would be 180 degrees out too... so I'm confused.
Anyhow, if your crank is locked and the pulley is lined up "more or less" with the pointer mark on the head/plastic then it'll run. If it's a whole tooth out, the car will rev "lumpy" so you can tell straight away. Just rotate the pulley into the centre of any "float" it has on the camshaft... and it'll probably be in the right place, even if the marks are 1/3 of a tooth out.
Ralf S.