Installed
Xposed framework the other day on my rooted S4 GT-i9505g as there were a number of subtle things missing compared to CyanogenMod.
XDA Xposed FAQ if you need to know more about what Xposed is.
There's a big
list of modules on XDA and a dedicated
/r/xposed sub-reddit.
Figured I'd find out what others find useful.
Currently I've installed and am using...
Advanced Power Menu as I wanted a "Reboot" option when holding the power button.
AppOpsXposed to control what apps can access.
NoSafeVolumeWarning as I was sick of being told to be careful turning the volume up.
WiFiKeyView to facilitate viewing WiFi passwords in settings.
I'll no doubt try out more as and when time permits, but what are you using?