i also note there is a dimple in the casting at both pulleys and two small grooves in the pulley which line up nicely with the dimples, so like Jluis says they look lined up? Whats bothering you about the set up? The cylinders not being TDC at the same time probably means the instructions you have are flawed? hard to see how that could be messed up as the relationship between the pistons is determined by the crankshaft and that's definitely not adjustable.
You know what the strange thing is? I'm not bothered by finding this. I've lived around classic cars my whole life so far, and I generally tend to get a good or bad feeling about a car when looking over it. Until recently I always had this feeling about the Maserati; almost as though it was hiding something. But now, that feeling has gone!
Best not start a 166 thread, but if anyone knows where there is a 3.2 Ti Facelift give me a shout