I also checked the WifiNina > Ap_SimpleWebServer example and clicking on High link actually turns off the LED and vice versa. I also tried with 0 and 1 instead of LOW and HIGH respectively to see if constant values has changed.
Regarding to the schematic the cathodes of the user (RGB) led are driven by control signals (PB08 of SAM D21 is driving "R") whereas the anode is tight to Vcc (+3.3 V).
So the behavior you observe is what is to be expected with this hardware constellation ...