The LED doesn't make any noise. The only thing you could be hearing is a faint whine from the power supply current changing, although I'm surprised that an LED would have enough of an effect to noticeably change the sound.
Removing the LED will not damage anything. No reputable product would be designed so poorly that a small decrease in current would break something. Depending on where the LED is though, breaking/disconnecting it could be far more trouble than it's worth, and you might risk damaging other parts of the monitor trying to get to it.
I would agree with the other commenter, your effort is probably better spent on something to help you remember to turn the monitor off. Or, even just buy a smart outlet and plug your monitor into that, so that if you forget, you can use your phone to power off the monitor without getting out of bed.