I'm pretty sure you can only test dark fiber. The simple Fluke tester that I have gives an error if it detects light on the fiber, and the manual warns that permanent damage is possible if the optical power is too high.
The product support page for the Fluke OptiFiber Pro says "OTDR and OLTS testing should be performed on dark fiber only (no active signal, no active components in the link under test)"
Russ