Hmmm... You seem to be hinting here of a much larger disagreement? What's your theory of the timeline or events?
It has been my primary interest in this case and I'm afraid to say I'm
still working on it. 
I think the times of the statements are a good place to start, and being as we know when they got there the skeleton is in place. In her testimony Amanda said something to the effect of her not waiting in the hall very long, like she was on the first page of her homework or something. Now an interesting question that occurred to me is what does the time on the Micheli report actually mean? I initially assumed that 10:40 meant that's when the statement was taken, but what you posted from Napoleoni suggested it was when it started.
There's a number of unanswered questions that I've been pondering that might give further hints as to how that night went:
What were they up to calling Raffaele in after 10 PM? A common answer has been that because of his schedule they deferred it until night, and then gave him time to go to the service for Meredith. However that doesn't make much sense to me. If they really suspected Raffaele of anything they wouldn't have
cared what his bloody schedule was, nor whether he went to the service. Raffaele didn't know Meredith anyway.
If they didn't suspect him, why would they call him in at such an odd hour just to give a witness statement? That suggests to me they brought him in as part of a
plan, like they had that CCTV tape they released soon after the arrests saying it was Amanda (turned out it was Meredith actually) and the phone records of Amanda and Patrick. Thinking there was a connection there due to the unfortunate Italian phrase Amanda used due to her nascent Italian, and that Patrick was 'lying' due to him coincidentally changing his sims card that day. Thus they bring in Raffaele either knowing Amanda will tag along, or like Giobbi insisted on the stand, it was definitely the plan to interrogate them together.
They tell Raffaele who (believe it or not!), went to the interrogation
stoned on hash that they have 'hard evidence' of Amanda leaving that night, and Raffaele who was also stoned the night of the murder soon decides the police must be right and that's where his story 'changes.' I think this is the easiest admission one could get in an interrogation, and Raffaele probably had no idea of the consequences of what he was saying, he just assumes they're right and his memory is wrong.
Shortly thereafter they have little miss cartwheels cooling her heels in the backroom with Perugia's finest. It probably doesn't go too well, thus they call in the interpreter who gets there around 12:30 if I recall correctly off the top of my head. At this point they are probably frustrated and angry, thinking Amanda is lying and as they think they have 'proof' that Raffaele confirmed that she left that night, and with the text and a couple other suspicious things (the mop and perhaps the 'black hair' that never showed up in evidence) have managed to convince themselves she and Patrick are in on it together and she's protecting her.
Then the gloves come off and they put the screws to her, culminating in them whupping her upside the head and breaking, having had her 'flashes' thinking at this point her real memories must be wrong. What's she have left now? The police are telling her they have 'hard evidence,' they've told her Raffaele has said she left, and now she has cause to question her memory. That produces the 1:45 statement.
Mignini is called in, he sees what a worthless statement they've produced and they start in after her again, finishing up at 5:45 and finally letting poor Amanda go to the bathroom, and maybe even Napoleoni at this point takes her to the snack bar. The latter might be the only bit of truth to have been in her testimony as far as I can tell.
I'm still working on it though, there's inconsistencies and contradictions everywhere trying to put it together, and I'm not entirely sure to take Giobbi's word on whether Amanda was to be there, or Monica's and Amanda's herself, though the latter may never have known it if Raffaele knew she'd be tagging along anyway, he never bothered to tell her. Or perhaps Napoleoni misunderstood Giobbi and didn't tell Raffaele.
