I dont have either Hokage or Jonin.

But I've fought against both.

I'd prefer Hokage than Jonin.

I know Jonin has scaling, but he takes a few rounds to hit hard, meanwhile Hokage has instant resistance buffs.

Properly play Hokage, he still can take out the whole team faster than jonin.

Cons for Hokage against Jonin that he requires set-up to hit the whole team.