It is the same issue as it is now...

The label is HER family (uncle). Just the typical bad business. I mean this is the same dude who let all the R Kelly stuff go down.

You can ask Jojo how bad the situation was over there

https://www.vulture.com/2015/10/jojo-fighting-the-major-label-man-in-her-own-words.html

So if this was how they were playing I think what happens is the album underperforms... Timbo and Missy are off to make a new superstar (They both got labels at that time.) and then Aaliyah is left w/o that direction and magic from the OG team.

She probably jumps fully into Hollywood... Ashanti and Beyonce still happen and then she fades a bit.