I recently had surprises washing ABC negs with gentle agitation, resulting in low stain, I thought it could be same thing, washing directly in Jobo being much more violent (I washed during 30' as usual in trays, maybe a bit long for a Jobo ?). I developed a new set of 13x18 (or 5x7" for you), washing them quietly during 30' with several waters in trays, and I got exactly the same b+f values than those washed in the Jobo. I'm not used with pyro in rotation, stain seems to work differently : with ABC developed in trays, stain comes during washing, while Pyrocat negs are already stained after the fixer.