Setting manual start of impulse response is very seldom needed, but in one of the impulse responses the start was not correctly set.
If you have done what is explained above, the lower plot should look as shown below.
In the figure above, the yellow vertical line gives the detection of the time window. By default WinMLS finds the start of the impulse response automatically but this can also be done manually. If we zoom in on the start of the impulse response (click and drag with mouse from upper left to lower right) we see below that the time window starts before the start of the impulse response.
If we drag the start of the time window a little to the right (click and drag using the mouse) we see in the figure below that there is a sharp spike just before the impulse response. The WinMLS automatic detection set this as the start of the impulse response.
Because of this, we will now turn off the automatic detection which is not correct in this case and use manual detection. To do this, go to Calculate->Calculation Options... as shown below.
Then click on the button shown in the figure above to display the dialog box shown below
Set the start of impulse response to manual as shown in the figure above.