zeevink I'll do it immediately tonight!
Those guide pulses are actually very useful when you are fine tuning auto-guiding.
For example, if there are multiple (more than 3 or 4, depending on how much backlash your mount has) blue pulses in a row before the blue graph returns to zero (or, in really bad cases, the blue graph never returns to zero), it indicates that the RA loop gain(RA Aggressiveness) is too low, and you should increase it -- change the aggressiveness value 5% at a time, and wait a few guide cycles before increasing yet more.
If the blue bars are alternating in sign back and forth, after a couple of pulses on each side of zero (i.e., oscillating), your loop gain is way too high -- drop the gain (the RA Aggressiveness number) until the system no longer oscillates.
The best loop gain happens around where the loop is critically damped.
Likewise, the red bars are used to determine the declination loop gain for your particular setup.
Don't ask or use the loop gain from someone else. Determine your own values, since it depends on many factors, including how well you have balanced the mount. If your mount has low torque, you may have to readjust every night, depending on balancing. And it could even change through the night depending on how "third-axis balance" changes the balance when the OTA is tracking an object. If you find it changing during the course of a night, you probably have a "third axis balance" problem.
So, don't turn "corrections" off until at least after you have adjusted the RA and declination aggressiveness.
Chen