City of Heavenly Fire wrapped up the Mortal Instruments series. The next installment of the Chronicles is The Dark Artifices, which takes place five years after CoHF. You can read about them here.
There are three Dark Artifices books: Lady Midnight, Lord of Shadows, and Queen of Air and Darkness. Lady Midnight and Lord of Shadows are out now. We don’t have a release date for Queen of Air and Darkness yet.
The Last Hours, the sequel series to The Infernal Devices, begins publishing shortly after Lady Midnight. You can read about it here. It’s about the children of the Infernal Devices characters. So the order of books is:
Lady Midnight (The Dark Artifices 1)
Lord of Shadows (The Dark Artifices 2)
Chain of Gold (The Last Hours 1)
Queen of Air and Darkness (The Dark Artifices 3)
Chain of Iron (The Last Hours 2)
Chain of Thorns (The Last Hours 3)
That carries us through for quite a few years, so other than saying that the Shadowhunter Chronicles is intended to wrap up permanently with an installment called The Wicked Powers, I think that’s all I can say right now.
(I’m leaving the Codex, the Bane stories and the Academy stories off as they’re not technically novels/series.)
The Silver Mask, the fourth book in the Magisterium series, will be out in October 2017. There will be one more Magisterium novel, and the series will wrap up next fall.
Hope that helps!