This is an actual interesting fight:
Now, I do believe Hermione will take this as, with shown in both the books and movies, she always goes for an incapacitation which would be enough here with restrainting charms, tickling etc.
On top of this Hermione has great protection spells like being able to ward him away with minimal wand work.
Additionally, I'm not sure if she would have this but she does have the Time Turner which would result in the same sealed time where an Hermione from the futue jumps in to help past Hermione to stop Jones, however, I don't believe she actually has it at this point and she may have given it back to Minerva at the end of Book 3.
We could also go over that Hermione was an expert Transfiguration Wizard, one Minvera was constantly impressed with and apparently gave special attention, see the Time Turner. With this I believe Hermione could also overwhelm Jones by animating small items to keep him distracted while she would spam her spells at him.
Additionally, Hermione has been shown to be very quick in thinking, using a stinging charm on Harry literal moments before Snatchers caught up.
Then to seal the deal, Hermione does have apperation, something which she is incredibly good at as well to apperate around the battlefield, with short distance apperating being something that Harry and the rest of Hogwarts had to do when attempting to apperate for the first time, so I have no doubt she'd be able to do it here with little thought.
And if Jones went to shoot at her, she'd be able to use her shielding charm, which has stomped physical attacks before, ironically, on Hermione herself when she was going to beat up Ron for leaving them in book 7.