Hello Hugo,
The Initial focal length value that you see in the Camera Calibration dialog is calculated according to the image meta data (basing on the EXIF focal length value and sensor pixel size). During the alignment Metashape is performing autocalibration procedure and the calibration parameters / distortion coefficients are refined. So some deviations from the Initial values are expected.
In cases when you do not see any changes applied to focal length (and other parameters), I assume, you have Adaptive Camera Model Fitting option enabled in the Align Photos dialog. This option allows the application to decide automatically, which coefficients should be refined.