I am talking about the onboard amplifier on the wlan-card.
I really doubt this is an "amplifier" failure. My money is on the diversity switch getting damaged - most likely due to ESD. I've had that happen to quite a few CM9's for various reasons - all more than likely due to improper or missing Earth grounding.
You may want to see if your omni antenna is designed such that the center conductor is at the same potential as the shell - most manufacturers refer to this as the antenna being "DC grounded" or something similar. The easiest way to tell if it is or not in the field is to use a multimeter or continuity probe and check for resistance or continuity from the center pin to shell of the antenna's RF connector. If it reads as a short, then it's the "DC grounded" variety - which is what you want.
If you don't have that kind of antenna design, you can put in a "shorted stub" style 1/4 wave lightning arrestor instead. RF Linx carries them -
http://www.rflinx.com/products/lightning-arrestors/ , but other vendors do as well if you look around.
The theory behind these failures is static buildup due to wind blowing over the antenna, or from nearby lightning, will eventually cause a static arc-over and pop the diversity switch. In my experience, this usually manifested itself as the radio going "deaf" - it transmitted nearly as well as before, but couldn't hear (receive). This sounds much like what you've reported as well.
Well, that's my experience, for what it's worth. Let us know how it turns out.
Brad