He had never done that in all his life, and it bothered him for a long time.

You have been bothering my daughter for a long time.

Had this bothered you for a long time, I wonder.

And this had been bothering him for a long time.

"I know, but this is going to bother me for a long time."

Finding out the answers to some questions that have been bothering me for a long time.

This had to be bothering him for a long time.

My second problem was less gruesome, but bothered me for a longer time.

A question or two, Professor, something that has been bothering me for a long time.

"I believe you're going to bother me for a long time yet."