Your save files are ok i think, i had exactly the same progression and the problem that jennifer is never in her room persists.
Probably not. No idea how some of you managed it, but Jennifer is never in her room for a save I checked from someone with the same problem.
open the console and try this:
jennifer.monitoring_sub_dermal= 3
jennifer.monitoring_sub_dermal_hacked = True
After that you will be able to see her location on your phone.
If it isn't "Jennifer_room", try this:
open the console again and type:
jennifer.locations[actions_left-1] = "Jennifer_room"
Close the console and visit her in her room right away.
There is no easy fix to repair your save game.
With one of the next version, I will probably add jennifer to the daily routine where the locations are reset each morning.
After that, the problem will disappear. Until then, please use my described fix.