well, in my case i had just switched 2 HC's from serial to parallel, the parallel setup decreased velocity and improved flow. temps however didn't budge. i solved the priming air problem by installing a 1250, but temps didn't get better. so, had i stayed serial my temps would have been the same as with a 2x strong pump and parrallel hc setup.
what this could mean for you is that if you would put the CPU block and GPU block in serial ... (dunno if they aren't already). don't take me as a guru on this, i have no proof whatsoever that airpockets could be the cause of the temp problems, just seems like the only explanation.
edit: i know it might seem harsh, but why not sell your gpu block? i'm ocing my 9500pro -> 9700pro to very high numbers with a p3 HS and 5V cpu fan. this would solve all your flow problems in 1 go.
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