Would really like some quick thoughts or advice on my wife's predicament here.
She applied (along with her family of 5), for ILR based on 6 year DLR (Form FLR(DL)) in July, 2018 (11 months ago!!). MP was contacted in February 2019, but the HO responded with their generic "can't give you a timeline" letter.
In September 2018, one letter (ASL.4041) addressed only to her was sent from Home Office confirming her application for ILR and stating that she has right to work until a decision is made, and to provide it to her employer should they need proof.
Two weeks ago her manager receives an email from HR saying that the Home Office confirmed her right to work back in 2018, and that the HO gave a deadline for June 2019.
After not hearing anything from HR, she decided to ring them today to see if it was resolved. Apparently they had not even requested a new confirmation of her right to work. Therefore, she will have to face suspension from 11th June until the Home Office responds to their request, when it was not her mistake in the first place.
Has anyone experienced anything like this before? I would really appreciate it if anyone had any advice on how to go about this.

Thank you.