Certainly CT Enterography seems to give the better views - but - it really all depends on the skill of the radiologist actually running the procedure AND their ability to recognize what they are looking at. Some are more skilled w/the SBFT than they are w/the CTE. And your covering doctor might be aware of that. Also, there is considerably more radiation exposure w/a CTE than w/a SBFT and your covering doctor may be taking that into consideration.
I know between COPD and Crohn's I've had so many xray and CT procedures its a wonder that I don't glow in the dark!!!