I have exactly the same issue. I landed safely (three times by now), but I never find him for the next mission in VAB.
I also noticed, that after recovering the vehicle, you get this window, where you can either go to Training Center or Tracking Station. The is no way to back to KSC, you just stay where you landed.
If you go to TC or TS and go back (the arrow in the top left) you go back to where you landed. so weird.
I guess Jeb is tired after a 3d long mission to Mun, he needs a holiday...