There were no changes to Apex integration code in latest Aqua update
And I just installed Apex (on a Galaxy Note 3 with 4.4.2) and checked it out -- and as usual, it worked fine.
Please check:
- Aqua was installed after Apex
- "External notifiers" is enabled in Apex settings, under "notifications"
- You've not selected Aqua as your Email app, or change any other related setting --> Apex Pro + "external notifiers" is all you need
Please try:
- Removing the Aqua shortcut from the home screen and adding it back
Other than that, debug log please.
With the log enabled, please mark a few messages in Aqua unread, then some of them read again, etc, so I can see how the counter gets sent to Apex.
Then with the log still there, reproduce the counter going missing.