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Hi,
according to my datasheet (which might be not the most recent) the combination
MSEL0(H13)=2,5V, MSEL1(H12)=GND, MSEL2(G12)=GND
is defined as Active Serial, Standard. (my configuration is MSEL0(H13)=2,5V, MSEL1(H12)=GND, MSEL2(G12)=2,5V, i.e. Active Serial fast...). As this is just the frequency of DCLK I would assume this not being anything to worry (except you need "fast mode")...
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Are you sure you're not looking at the combinations for Cyclone IV GX? In my datasheet those combinations are in the table for GX, while the combination you are using is actually the same for both.
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Maybe you should use a DMM and measure the resistance of CONF_Done to GND (w/o board powered) - maybe there is a "hard short"?
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It's a cool 2kOhm so that shouldn't pose a problem.
Honored Contributor
