I'm sure he will, but he'll adjust. Just make sure he has everything he needs...toys, litter, water. And he'll be fine.
You could always get another kitten to keep him company, but it's not really necessary. Most cats are loners to some extent and he will soon adjust to your schedule.
I work long hours and as soon as I get home my kids are waiting by the door. If I come home early, Kitty hides, as the older and wiser of my two cats, she figures it means it's time to go to the vet.