Note: This is a review of the Kadokawa Pictures English dub of this movie.

Violence / Gore:
A person is hit by a train, but it is off-screen. A girl falls down and gets pretty beat up by it, but there is not a lot of blood.

Nudity / Sexual Content:
This movie is very clean except for one random comment that is repeated as the girl goes back in time and relives the moment again and again. It is said jokingly in the close-up background, and can go over the heads of small children, but it was sexual in nature and awkward to hear.

Potentially problematic theological themes:
I don't remember any. The time traveling is not magical - it's a sort of futuristic technology.

Other potentially problematic themes:
Maybe a mild swear, but I don't remember any other issues.

*
The Girl Who Leapt Through Time is a wonderful film about a girl who has to deal with the harsh repercussions of her choices. It is funny, moving, and thought-provoking. I felt the film lacked only in character art, but that comes down to personal preference. I've seen this film multiple times, and find that it is worth the watch every single time.