Ok last update for Gigabyte P35-DS3[R]
Mugen is mounted with his blower to the bottom. Ok thats not 100% perfect but, the temperatures are also very good. You cant position the mugen in an other position, because you cant use ram slot 1, and you need it. If you want Dualchannel you have to put a RAM in Slot 1

Now its even tight between Mugen and the RAM in Slot 1 but it fits
Greets from Germany
Drachton
Ah i forget a picture. You'll see here Mushkin HP2 in Slot 3 and 4, thats an old picture. Now they are in Slot 1+3, it works.
Directupload.net - b75PvhoR.jpg
So i would say
Gigabyte P35-DS3[R] is yellow for Mugen, in fact of the position blower to the bottom