Yes, all job rotations will be upgraded for level 80.
The combat system is in early beta, but each new version introduces new abilities support.
Shirk is a raid utility. It requires good knowledge of the encounter and party synergy in order to time it properly. Therefore it must be implemented via a cooldown optimization UI, which will be introduced later along with Raiding support.
Until then, please use it manually in accordance to encounter timings.
For future updates, please refer the main status thread: Shadowbringers – Miqobot Status