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Very unstable JTAG chain on PCI Express Development Kit, Stratix II GX Edition

Altera_Forum
Honored Contributor II
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We have such board: "PCI Express Development Kit, Stratix II GX Edition", 

http://www.altera.com/products/devkits/altera/kit-pciexpress_s2gx.html 

It contains EP2SGX90 and EPM570 devices on the same JTAG chain. They are also claimed as multi-voltage. 

Programming is very unstable (by Quartus programmer). Sometimes it detects two devices, sometimes it even program both, but often says "Error: Can't access JTAG chain", sometimes also "Error: CONF_DONE pin failed to go high in device 2". 

Nios II IDE also cannot load anything inside Nios II CPU. 

Is this JTAG unstability is connected somehow with multi-voltage feature? 

USB Blaster is used, BTW. 

Is there any special DIP configuration need to be set?
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