Yeah GPU contribute to heat up the case (i had dual 560ti with the D14 so maybe my temps was a little higher than normal)
HWmonitor, Aida64, Coretemp, the ASUS utility for your motherboard could also measure temps and would surely be the better option...
stock voltage will bring you to about 3ghz to max 3.2ghz... Mine was running way over specs at 1.6V Vcore and 1.5V VTT for 4.05ghz (however it was the SLACR G0 version) I was able to reach 3.6ghz with 1.4V but i was lucky, most Q6600 will hurt a wall at around 3.4 3.5ghz and would need a lot more Vcore to pass the wall 1.4V for 3.6 and 1.55 for 3.7 when 1.6 bring my Q6600 to 4+...
For B3 Q6600: Intel max Vcore is 1.5V; max temps 69C; max VTT 1.4V; max chipset voltage 1.4V (in theory you could go to about 425-450mhz FSB with that voltage) If you manage to keep all that below, you'll be ok and safe on the long run...
When trying 3.2ghz, did you downclock your RAM to match the stock speed (or the closest setting possible) as RAM overclock is a lot of work and on 775 socket 4dimm will never pass 800mhz at 400+FSB unless you throw stupid amount of voltage into ram and internal memory controller (IMC) (FYI: my kingston Hyperx was 1066mhz 2.1V and to run at 450FSB and 1200mhz ram i needed 2.8V on ram while 2.3V is considered dangerous and i was also forced to use 1.6V on the chipset to keep it stable...) Also make sure the reference voltage is ALWAYS EXACTLY 2/3 of the VTT or that could burn the transistor inside your CPU...
PS: for 3ghz, FSB at 333mhz X9 ratio and set the ram to 800mhz if you have the option as ASUS isn't offering multiple RAM ratio like other brands... Don't touch any RAM or Chipset voltage for a low OC like that, they should be able to run that easily.
If ASUS don't have ram speed and ratio options, select 667mhz at default 266 and up to 333, that will give you 835mhz and your ram should be ok for just 35mhz (if that don't pass, up the RAM voltage by 0.1V and don't pass 1.9V for generic ram or if you use high-end module 2.3V is the absolute max if you don't want to burn anything, you could go higher like me but i'm more a hardcore guy that push a lot ;-) You could also push .1V more on the IMC/Chipset to ensure stability on the long term...