Welcome to the forum.
I'm not familiar with that unit or any deeper implications, but charge controllers are continuously attached to batteries, and they don't drain them any faster than the current they need from them.
The only potential issue is if charging sources somehow significantly exceeded the charge controller's rated voltage, i.e., subject a 12/24V SCC to something like 40V - that would probably destroy it because the voltage would overwhelm the circuitry protecting the SCC.
If a super high voltage situation happens, you're also likely dealing with destroyed batteries and any other attached electronics.