I'd personally go for the shorter commute. Many TOCs have a phobia of night shifts and as a result have shifts finishing at 2am and starting at 3am. I'd say a commute feels at least twice as long at that time of the morning, even if in reality it's twice as fast due to there being no traffic!
However, if you go for a TOC, you may well be able to switch to a FOC once qualified if you don't like passenger work. Most TOCs only take trainees at the moment as there is a financial incentive from the government to register them as apprentices, FOCs often find they need drivers who will be productive quicker.