From 10.11 to 10.11.2 (15C27e), if the USB UPS cable is connected, in my iMac 27'' (mid 2014 full optional!) this window appears:
<<Warning! You are using power supply with UPS. Save documents and shutdown your computer.>>
each time that OS X start up or restarts.
Important! Because this alert appears for a short time, care should be taken when appears the window to insert the login password.
(A trick: you can record a little movie with an iPhone)
This problem is associated to serious issue: if the USB cable of the Backup-UPS power supply is connected, Time Machine does not perform properly the hourly backups. If I disconnect the Backup-UPS cable from the USB port and I start OS X, instead, the hourly TM backup properly works.
My UPS is a APC Power-Saving Back-UPS ES 8 Outlet 700VA 230V model ES 700G by APC (now it is renamed BE700G-IT) and with Lion and Yosemite it works well. The Power icon of the Menu Bar, say that my iMac is 100% powered, also in El Capitan.
Obviously, i tried also with some clean installations of El Capitan, stable or beta version, but the problem persists.
I sent various feedback to Apple, from site and with Feedback Assistant.
Excuse me for my bad English 😊