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I've been saving up all my credits. I'm at level 23 now and I'm going to replay all the missions to get the achievements. Will the upgrades I buy now apply to the missions I replay? Will any of them? Some of them? How doe sit work?

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Uhh, even if that did work, why save up? It's not like you're earning interest, and the upgrades aren't getting any cheaper... – BlueRaja - Danny Pflughoeft Sep 10 '10 at 1:48
The only reason to do this is to get all of the upgrade achievements in one go. (Save, buy all of one category, load, buy all of another category, etc.) – JavadocMD Sep 10 '10 at 5:48
Yes, the easiest way to get all the armory and mercenary achievements are to play through quickly on casual and don't spend any of your credits until you're ready to farm the achievements. – Lotus Notes Sep 10 '10 at 21:04
@BlueRaja: You might save up credits to burn them on the later-game units. Whether or not that's a good idea... – Nick T Oct 23 '10 at 19:33
up vote 9 down vote accepted

When you replay a mission you only have the upgrades you had the first time you played through

As @Raven pointed out in the comments in the branching missions if you replay the other path you'll have all the current upgrades. When I finally got around to playing Safe Haven I had battlecruisers already.

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So I shot myself in the foot? Awesome. – mpen Sep 10 '10 at 1:20
This is not completely correct -- I think that you might be able to use ALL upgrades if your replay the "either or" mission that you skipped when you first had to make the choice. But generally, Davy8 is correct. – Raven Dreamer Sep 10 '10 at 1:33
Yes, I forgot about that part but you are correct. – Davy8 Sep 10 '10 at 3:47
Yeah... I just played one of those, and it was so easy :) – mpen Sep 11 '10 at 6:11

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