Pretty crucial difference in this ITT was that unlike many of these TTs with a hill in it, the downhill section was only a slight drag on very wide roads which is unlike usual when it's a bit of a recovery section. Obviously it favored the purest CdA merchant in the bunch.
Pogacar already looked really bad to me on the hill, I wouldn't be surprised if he started at a certain power and blew up there already.
But anyone overly eager to draw really big conclusions from this isn't serious. Pogacar is peaking for the Tour, not the Dauphine, and only certain fans would use not winning the Dauphine as evidence of not being in the best shape in the Tour.