In 90% of the games the opponents scoop to save time when you begin to charge Jace because it means that they don't have any threats in play and that you don't have any need for extra cards anymore. In a real tournament where time matters and the opponents benefit from the game taking longer you might win some games with his ultimate because they make you go through the steps.

Aside from that it depends on the version how many games you win with Thopters and how many you win with Jace. Lists with 4 Foundry/4 Sword will of course win more often with the Combo.
In my version with Enlightened Tutors and only 2 Foundrys/1 Sword I win about half the game via "check mate" (Jace/Countertop/Moat or similar locks) and the other half with the combo.