It's not that he doesn't WANT to cuddle Rodney in his time of woe, it just that he likes it when Rodney gets all flustered. He also might have a "Rodney Spazzing And/Or Out About To Die" fetish? NO!

Rodney will also make sure that if John keeps complaining he will tell him all the very awesome things that are happening to his puddle jumpers while he is away. Even show him little videos of them.