Hi Lucas
I think rather the first version without the explicit SCALE parameter is right, because LIBXC already includes the correct MGGA exchange scaling parameter 0.46 as _A0. Instead, you should add the &HF section with FRACTION 0.54 for the matching EXX contribution. I am not aware of any M06-2X optimized PPs for CP2K. In case, you have only light elements, you may consider all-electron runs for which you can find validation data in the literature.
HTH
Matthias
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