Wow, the game has changed somewhat

It's been a year since my last play through and I've seen changes to a couple missions so far. The mission where you "used to" go through the ship scrapyard to get the 3 Cylon ships...well, there isn't a junkyard anymore. No ambush from the Janus cruisers and all that.

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There's been a couple other changes as well, but I don't remember the missions. This is m y 4th play through