You can only have one set of adjustments (3 focus distances x 1-6 focal lengths)
in the lens entered via the Tamron Tap-in console.
So I would do the initial
in lens calibration with the camerabody you intend to use most with the Tamron 100-400 via the Tap-in console with the AF fine-tune in camera at 0.
Then for other bodies you can check how autofocus is at your most used focal length and adjust
AF fine-tune in camera if necessary.
An alternative is to average the in-lens adjustments for the two most used bodies with this lens, but I personally would not recommend that.
See
Brad Hill's blog of 21 May 2017 where he balances the values for his Sigma 120-300 between two bodies. In that respect the Tamron Tap-in console and Sigma USB Dock are similar.
But actually with the results you are having now I would not worry too much.