Oh yeah, you guys are talking about the VRM (that heatsink above the CPU), as Arne said... the PCH/South Bridge is lower, below the graphics card, and has not too much to do with prime95 stressing...
Overheating the VRM can and will cause throttling... so, as stated before, it needs adequate cooling... The main drawback of using a closed-loop cooling system is that the VRM region will loose the airflow. So you need to do some adjustment to prevent that... the easiest way to get a nice airflow on the VRMs, is to change the direction of the airflow on the top and/or rear fans... doing it on the top fans actually may be better, but depends on the case...
In the present situation, the radiator/fan setup bulges too much into the case... it covers some heatsink on the left of the CPU, which is connected, I believe, to the main VRM heatsink through a heatpipe - so it's an important part of the VRM cooling... having it covered, meaning no airflow... I would try to mount the radiator directly on the chassis and the rearmost fan place outside...
After that, if the top fans are aready sucking in the fresh air, you can try to mount on them a deflector to redirect the air toward the VRM heatsink... You can leave the rear rad/fan setup as exhaust... Then, set the side fans as exhaust - that will help exhausting the hot air from the VGA too... and keep the front fans as intake...
Also, check the voltage issue, Arne mentioned above...