Hi, Antonio.
With FS Flight Keeper there are certain things which could explain problems. First, it can only watch those items it knows about. These are mainly FSX default commands and status items.
With that in mind, anything e. g. working differently on the switches and their status may mix up FSFK as it still thinks that you e. g. have the landing lights on, although you've turned them off.

You may see and get this on some other planes too, with other commands like the seatbelts for example.
So it would be a thing of making sure that FSFK is able to identify the status of the lights on the CS plane. I haven't used FSFK that much and deeply to help you there. I can only say that all custom commands on planes usually mix up the flight critique section quite a bit.
Maybe the author of the program or the manual can help you on the status and tweaking of the flight critique section. The author is very friendly and helpful and runs a dedicated forum. Maybe another CS pilot already found a solution and posted it.

The 'below glideslope' thing derives when flying with a certain glideslope offset for a defined amount of time. If that was a manual landing, you may try again. If automated ones (autoland) give you that warning, one would have to investigate further though.