"Hey look, big numbers" is not an acceptable substitute to actual analysis. Yes, 1300 DPS is a lot. On the other hand, the extra 473 agility on H:Wrath of Unchaining gives a lot of DPS too. And unless you'd like to provide some actual analysis as to why one big number should be larger than another big number, I don't see that you're really contributing here.
For the record, I don't see anything in Vial's ranking that concerns me in the slightest in terms of estimating its damage output. If you disagree, that's fine, but you'll need to do a far better job of explaining why.
Is the trinket vial of shadows just not modelled properly in Shadowcraft because I'm struggling to see how it can't be BiS. It currently hits for me for 40k which means at the very least (ignoring crits). It gives me at least 1.333k dps ignoring the passive agility it also provides. Is the scaling dmg it receives from AP modelled?