There is no foolproof test. There is the camera pill endoscopy, MRI Enterography, CT Enterography and Prometheus Blood Test. All are flawed and not necessarily conclusive. Apart from that, Crohn's can develop after getting a J Pouch, as in my case. Usually they like to try to rule Crohn's out rather than in before doing a J Pouch. But it's a sort of best guess scenario. The MRI Enterography is the "gold standard test", and the only other thing they might do is the camera pill endoscopy- which can be risky if he just had surgery.
The best they can probably be able to do is go with the results of MRIE. But it's not 100% conclusive and Crohn's can still happen AFTER you get a J pouch. In my case 15 years after. That's not a dealbreaker for the J Pouch but what usually is a dealbreaker is established pre J Pouch Crohn's.
By the way I had MRI, CT and Prometheus. All were inconclusive. My Prometheus was negative for UC and Crohn's antibodies and was studied by pathologists on both coasts. It's still not definite that I have Crohn's, but when there is inflammation in your ileum that's what they call it, regardless of whether it may be due to backsplash stool from the J pouch.
What you can do is get a second and third opinion on the MRI study- I would suggest that.