The trains have been running late, but they're gradually catching up.
The trains are still late, but not as late as they were.
The trains were 20 minutes late, but they're slowly getting back on schedule.
run late = 遅れる（「遅く走る」ではなく）
I teach three third-year classes, but two of them are running a week behind the other on the lessons we cover in class.
３年生クラスを三つ教えていますが、授業でするレッスンに対して、その２クラスはもう一つのクラスは１週間遅れています。
catch up = 追いつく
I want those two classes can catch up to the other one.
その２クラスはもう一つに追いついてほしいです。
get back on schedule = スケジュール通りに戻る
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