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When you run it twice Farha could have won double the pot if he won both

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Must be a joke...but on the off hand it isn't.

When you run it twice, there's 3 possibilities:
a) you win both, you win the pot.
b) you lose both, you lose the pot
c) you win one/lose one, you split the pot.

When you're the favorite, by running it twice you'll very rarely lose the pot. You're giving up some out right wins to prevent more outright losses (more splits). The EV doesn't change, you're just reducing the likelihood of the extreme results.