Anybody else's top link bar in Modern experience disappear?

Good Afternoon Everyone...

Glad to have come accross this post, i have 2 Clients who have the exact same issue. 

Tennant 1 - The use publishing and have a custom page layout and custom HTML Nav so the issue is not effecting there top level site due to the way they use sharepoint however the modern lists and libraries have no top link bar.

Tennant 2 - Use Modern Site Pages and Lists and Libraries but the navigation has gone completly from all areas using Modern. Classic seems fine but they are not using this so this is a big concern for this client.

Tennent 3 - My own tennant i use modern sharepoint in a non publishing site and use modern pages, libraries and lists and works ok, I tested using a new Site Collection with Publishing on and the navigation for sites on the modern pages appears ok for me but again lists and libraries in modern experience dont show the navigation.

So a known issue now with 2 clients including myself and no further forward to getting a reply other than looking at the HTML and there is a difference in the ones working and not working as you can see below...

NAvigation not working HTML

<div class="ms-compositeHeader-topWrapper noNav ms-hiddenMdDown" data-reactid=".2.0.3"></div>

Navigation Working HTML

<div class="ms-compositeHeader-topWrapper ms-hiddenMdDown"> there is more within this Div as it works.

Any input would be great as i have been scratching my head all day but this was working fine yesterday morning and last week as i was building this and teaching this.

#HELP