- All players have flaws.
- The question with Hernandez, as with any player, is do the positives outweigh the negatives (flaws)?
- With Hernandez, there's one significant positive: his On-Base Percentage. His career OBP is .359. His OBP since the beginning of 2016 is .375. This in an organization that,until this spring, didn't emphasize (and arguably de-emphasized) the importance of OBP.
Yes, he has flaws. But do "little power and not a very instinctive baserunner" negate a .375 OBP at the top of the batting order?
I'm not a big fan of WAR (any flavor), because I find some of its components...suspect, and because given there's no standard, you can often just pick the version that supports your argument - which isn't analysis, but rhetoric. But that said, Cesar's bWAR the past two seasons were 3.2 and 3.1; his fWAR were 3.9 and 3.3. If you credit WAR at all, those are good numbers.
It's not obvious how the Phils should/will deal with having both Hernandez and Kingery. As andyb said, it's fine keeping both of them for now - this season is at least partially about shaking out the talent, finding out which of the infielders we go forward with (and which of the outfielders). I would not be at all surprised to see some kind of talent-compression trade, probably next winter, to move one of Santana-Hoskins-Herrera-Altherr-Williams-Quinn, and/or one of Franco-Crawford-Hernandez-Kingery. And if the Phils actually pursue and sign another big bat (Machado?), then multiple players from those lists will likely be moved.
Franco, Hoskins, Kingery, Altherr, Williams, Crawford - the jury's still out on all these guys. That makes trading for any of them fairly risky for another club. Cesar Hernandez and Carlos Santana are "knowns." At this point, given Santana's contract and age, that makes Hernandez probably the most tradeable player they have - his abilities are established, he's young enough to contribute to a club for some time, he's controllable, and they have other players to fill his lineup spot. Per andyb, I wouldn't expect upside growth from Hernandez - but if a contending club needs a leadoff hitter who won't kill you in the field, who can generate 3+ WAR (any version), that .375 OBP looks awfully attractive...and he's done this over the past 1,200 plate appearances.