Cooperative Calligraphy - S2-E8
Character mistake: Right before Jeff searches Abed's bag, Britta explains to the group that Abed is the innocent one. After Jeff reminds her that Abed put gum in her hair, she looks at no-one in particular and says "empty the bag, Abed." Jeff is the only one holding the bag, with Abed standing five feet away from both of them. It's clear this line was directed to Jeff, but the wrong name was used.
Answer: The implication is that Jeff will still be teaching at Greendale after Annie and Abed leave. As for who became vice dean? It's never shown, since it's not really important to the series.
TedStixon