There was an article in , I think, Passagemaker magazine last year relating a 'club' of ppl who bought old trawlers, fishing, cruising, etc, and remodeled them. One of the first points made was that, even buying new, the best, most expensive yacht, you are going to have about a dozen glitches where things don't jive and work as expected. Some one had usually already worked the glitches out of the used boats.
So, sorry about the disappointment, but you are not alone. As someone mentioned earlier, there is alot of trim, dust, shavings, etc., scatterered about that hull which could accumulate in a screen, pump, or valve and cause some problems. Even if there were no problem now, I guarantee you're going to have to get down and clean or replace that pump, screen, or valve sometime during the first five years anyway.
Enjoy the good times and just write off the glitches - they're gonna be in almost anything - it's not a perfect world.
I am certain you will learn to love your C-Dory in the long run!
John