Dear Authors,
Thank you for the thorough response to the reviewers. I have gone them through and have only minor technical suggestions that should be addressed:
L172: Should be (Fco2/E) and not (F/E) corresponding the equation itself
L183-185: It is not clear from the additional text to which "These data" on line 183 refers to. My understanding is that the sentence concerns A(E/A) part of the equation and not only A. Thus I would consider how to clarify the text here on L181-189.
L341: I think there should be the in front of absence-> the absence
L360: The 7 (pseudo-)observation stations are mentioned now here for the first time as they are explained only in Section x.x. Thus it would be good to specify here something like 7 stations in where the approach will be evaluated.
L501: Should be “fluxes can be significant”

You write currently in the Code and data availability section that "The source code available from https://git.wageningenur.nl/ctdas/CTDAS forms the basis of the system described in this paper.". References to webpages should be avoided as they are not permanent (not even in git). As the full code is provided as an supplement I suggest to remove the whole sentence as you have the reference included on the previous sentence.