I built a PC last year that I'm still trying to work the kinks out of. Pretty stable for the most part except after about an hour working on a project, I'll get some drop outs and have to restart X2 other than that pretty stable with 3 powercores, 1 UAD-2 and on occasion my Focusrite Liquid mix. On a Gigabyte Z68.
I'm still using the onboard VIA 1394 chip for my firewire and I also heard that TI chipset cards are recommended. I've tried 2 pro audio recommended PCIe cards with TI chips. The Lindy card and the SIIG. Both install but intermittent connection and no funtionality. The slot I had reserved for it had only one other device sharing the IRQ.
I was reading that TI chipset firewire needs its own IRQ. Not sure if that's the case.
I'm thinking that if that TI chipset PCI card you have may be the conflict. If you have onboard I would give it a try with the TI card removed.