I put small plugs on each of my fans. It isn't an issue removing the fan but if you do it is good to also remove the left stepper.

It isn't going to hurt anything with the left fan coming on. It is triggered at 50c which after a while the heat from the right extruder will heat up the left side enough to turn it on for a bit. Heat travels from the right side and through the cooling bar then down to the left hot end which is has its own thermocouple.