That's actually a good question. The first thing you'd want to do is set your timescale back to 30 before uninstalling the mod. What I'm unsure of is whether the changes made to the hardcoe rates will be reversed when you uninstall ITA. Since they seem to take effect when you install, I would think they'd go back to the default when you uninstall. If not, you might need to use the console command setgamesetting to restore the hardcoe related gamesettings to their default values, in other words you'd need to enter the console and type:
setgamesetting fhcdehydrationrate 10
setgamesetting fhcstarvationrate 25
setgamesetting fhcsleepdeprivationrate 50
setgamesetting fhcsleeprestorationrate 60