I think students should be taught how they most want to be taught.
If a boy isn’t interested in learning gemara, but loves learning Tanach, he should be able to focus on that.
If a girl is really interested in learning gemara, she should be able to focus on that. (IME most girls don’t want to, but those that do really excel because they love learning it).
When you try to pigeon-hole kids into a specific learning path, you turn them off from learning altogether.