I suggest that you read them in a slightly strange order. That means:
The Mortal Instruments, Part One:
City of Bones
City of Ashes
City of Glass
The Infernal Devices
Clockwork Angel
Clockwork Prince
Clockwork Princess
The Mortal Instruments, Part 2
City of Fallen Angels
City of Lost Souls
City of Heavenly Fire
Then:
The Bane Chronicles
Shadowhunter Academy
Lady Midnight
etc….
If you, understandably, don’t want to break up your reading that way, I suggest this:
The Mortal Instruments
The Infernal Devices
The Bane Chronicles
Shadowhunter Academy
Lady Midnight
And so on.