No, not Manuela Comodi, but Judge Massei affirmed (not "insinuated") that a phone call in the middle of the night is abnormal, unless it is a custom for the person to call at those times.
It is not normal to call people at 3:00 am as well as at 5:00: either this is a habit, or something not normal must have happened.
If you call me at 5:00 you better have an important reason to do so, believe me: the fact sun raises at 5:27 is not a good reason. The concerns in household must be of a kind that constitutes really urgent issue and requiring an urgent advice, like maybe a flooding, considering that Amanda did not call her mother often at "pre-dawn" hours.
So I would replace your definition of "sinister, guilty of something pre-planned", as something "very urgent and not normal going on".
The problem - as I explained - is not that a non normal and urgent call took place. The problem is how Amanda explains it, how she doesn't mention it in all her previous recollections of events and questionings, and how she still doesn't remember of it in court.
However, the main problem for Amanda is that this is only one of the many inconsistencies in her story.
Of course it's unusual to call people at 4.47am. And these were unusual circumstances. To me (and others), its entirely clear that Comodi was trying to construct the following argument:
1) Knox called her mother at an unusual and anti-social time of night
2) But "nothing had happened yet" when this call was placed, so...
3) ...why would Knox elect to wake her mother up at such a time over "nothing"?
4) This suggests (in Comodi's reasoning) that something very real HAD "happened" in Knox's mind, contrary to what she "ought to have known" had "happened" at that point in time. Something which worried her enough to have woken her mother up in the middle of the night. Therefore.....
5) ...Knox knew more than she "ought" to have done at the time of this call, therefore.....
6) ...Knox knew that Meredith had been murdered at the time of this call.
To me, this is exactly the suggestion that Comodi was quite deliberately trying to plant in the minds of the judicial panel through this line of questioning. Massei actually assisted her by reinforcing the unusual nature of the timing of the first phone call.
Of course, as so often, the truth is probably far more simple. Knox had ample reason to call her mother at 12.47pm Perugia time. By now, she and Sollecito had discovered the broken window in Filomena's room, and had tried and failed to contact Meredith. And, when put together with the blood in the small bathroom (which now began to take on a more sinister connotation in the light of the broken window and the failure to locate Meredith), and the strange faeces in the large bathroom, all of this would certainly count as sufficient grounds to call one's mother for advice and support.
And it's equally explicable why Knox might have forgotten this first call to her mother. It took place as the first in a fast series of calls which culminated in Sollecito's emergency call to summon the Carabinieri, and the Postal Police almost certainly arrived shortly after this series of calls took place. So a lot happened in a short period of time (within 10 minutes). And once the Postal Police had arrived, events quickly escalated further, culminating in the horrific discovery of Meredith's body, and the distressing aftermath of the discovery,
What I completely fail to understand is why it is in any way incriminating that Knox claims to have forgotten this first call to her mother. As I've explained, she had every legitimate reason to have made it, given how concerned Knox and Sollecito say they had become by 12.47pm. And anyhow, just supposing that Knox DID kill Meredith and knew exactly what was behind her bedroom door, why would she deliberately lie to deny calling her mother at 12.47pm when - as discussed above - she had a ready-made "innocent" reason to have called her?
I think that the reason the Knox claimed not to remember the 12.47pm call to her mother is that........she actually didn't remember the 12.47pm phone call to her mother.