No, there are no bathrooms in the theatre. There are some nearby, though.
Some people will say the balcony so you can see the flying carpet, but that is such a small portion of the show, I don't think it's worth it. And if the theatre isn't full, it's not even an option.
We've seen it twice. The first time, we were on the very far left, maybe 3 rows back. My DD sat on the left aisle. The really cool part about that is when the parade came through, at least 2 people looked at her and showed her the treasures they were carrying. It was VERY cool!
The other thing about sitting way on the side is that you can see a tiny bit of what's going on backstage at certain times. I liked that part.
The last time we saw it, we were on the front row, just left of center. We really like being able to see the expressions of the faces of the actors and being right there in it. There is a little bit of audience interaction and we felt like Al could actually hear us. During the parade this time, one of the camel riders came up to my DDs and put the camels nose on her nose a couple of times. We LOVED the interaction.
However, if your little ones are likely to get freaked out by that kind of thing, then the front left side isn't the place for you. Especially when Jafar turns into a snake and then a genie - it's right there at the front left. In that case, I'd say the front right would be the place to be. Close enough to see w/o anyone getting too close.