I think many are over-thinking this stuff. This ITO stuff is the stuff they use to get more info, which means you're always behind what they know. I'm sure they have plenty of evidence but, give the range and significance of the charges on the table, want to have everything just so, so the city's slipperiest eel doesn't get away.
As for the crown not knowing Lisi's motive...I mean, read between the lines. "Your honour, we have plenty of evidence of Mr. Lisi aggressively trying to retrieve a video of his friend, the MAYOR OF TORONTO SMOKING CRACK and we also know that he previously offered gang members marijuana in exchange for the MAYOR OF TORONTO's lost phone but, geeze, we just can't figure out why he was doing these things."
They know the motive, obviously. Equally obvious is that the iCloud stuff, no doubt still being analyzed, was specifically obtained in the hopes it would PROVE (ie "beyond a reasonable doubt") that Lisi wasn't just doing this because Rob is such a sweet guy but because he was told do so.
What hard evidence they have right now is the question, followed by how much of it has been disclosed to the crown in this hearing. As someone else pointed out, it's possible they don't know, because their job is prosecuting Lisi. It doesn't seem far-fetched to assume there's some plausible deniability at work and the people working the Ford side of things are keeping them in the dark. I wouldn't read very much into or get too disappointed by the crown's apparent lack of understanding about Lisi's motives.
(As for turning Lisi, if the Apple stuff is substantial, that ship has sailed for him. They will smile and wave at him, letting him know they got the proof they needed without him, thank you very much, and he can enjoy that little bit of extra time on jail he earned for standing by his man. Of course, that depends what's in the cloud but it sounds like they hope/expect to find a full-on smoking gun there.)