MSI p965 NEO-F SpeedFan setup guide !!!

Question

IF you have MSI p965 Platinum board, speedfan 4.32 Beta 8 does not support it, please wait for release of speedFan beta 12, which should support platinum board. (thx: Olabe)
25.1.2007: Added screen shots from my settings. (10th post on the thread).
Okay. Seems many people have problems setting up speedFan with p965 neo. I agree the setup is bit cryptic, but I got it working with the help & HOWTO guide included with speedfan. If this didn't help you, try to follow these instructions.
My setup. (tested to work with bios 1.6B9 , 1.6B13 (D) 1.6B15 (F) ) With P965 NEO-f
I am using SpeedFan 4.32 Beta 8. (to download beta, you need to register to speedfan site b4 you can download it, so of you go to http://www.almico.com/speedfan.php )
Oh btw if you want pictures, I'm feeling lazy, refer to speedFan manual it has nice pictures and quite good howto too.
When you start speedfan you will see some temperatures and maybe one fanspeed that will probably say 0 RPM. Don't care about the speed reading yet.
What we are interested are core1 and core2 temp.
Press configure button and go to temperatures tab.
** TEMPERATURES
There are temperatures core1 and core2. Open first core1.
There you should see like speed1, speed2, speed3. For my rig, speed2 was actually CPUfan, so with 965neo it should be that, for platinum ppl you just have to figure it out by testing.
Open CORE1 and untag all other speeds except speed2. This means that CORE1 temperature is related to SPEED2 of some fan (cpufan).
Now Do the same to CORE2, as it is cooled by same fan.
Now before you exit temperatures, choose core2, set desired and warning temp. SpeedFan tries to keep "desired temp". Mine is 53C, meaning if core1 or core2 goes above, fanspeed is increased, if both are below, fan will be slowed.
!!! REMEMBER to set the FAN to cool both cores, so that if 1 threaded program is causing lot of CPU load your cooler reacts to it !!!
** FANS
Go to FANs tab. Unselect all but SPEED2 (you can also rename it). This means only speed is shown for this fan. (I only use 1 fan that gives readings).
** SPEEDS
Go to SPEEDS tab. And select SPEED2. Here you can set maximum and minimum power of your fans. Mine are 0% and 100%. With my mobo and intel stock cooler 0% is about 1050RPM. Tho you should check that the fan does not stop with this setting but not yet.
** ADVANCED
Go to Advanced tab. From selection menu select "WINBOND blahblah".
Now you must edit 2 settings.
FAN2 divisor, set this to 8. (now you should be able to see fanspeed, but dont exit the menu yet).
PWM2 mode is something like "thermal cruise" meaning its mobo controlled, change setting to "manual PWM control" and check box "remember it" from very down of the settings window.
Now press OK.
Now from speedFan main menu, you select (below settings button) automatic fanspeed.
So now speedFan should be controlling your fanSpeed and you should see also your fan rpm (thx to blueKnight giving hint about the fan divider).
If you cant see your fanSpeed I dunno, but even if you dont see it, if you have done the setup on correct fan, speedFan should now control the cpu fan power % depending on Core temps.
Now get pifast/superpi/prime95/stresstest (i prefer stresstest).
First run something only on one core, see if speedfan reacts it, or if you even hit your "desired temperature". Fanspeed should start going up.
If this does not work, try changing on other core, or run 2 threaded test. (or for pifast, make a bat file that runs it continously) and run 2 pifast. Preferably before this open to CMD's and setup from task managers processor affinities so that cmd1 runs on core0, cmd2 runs on core1.
**** pifast_continous.bat ****
:alku
call pifast.bat
goto alku
/*** pifast_continous.bat ***\
You need to use "call" command so that it runs continously after quitting pifast.
Pifast.bat is a batch execution file that runs the pifast with pre defined settings so that it wont ask any questions after startup.
**** pifast.bat ****
pifast33.exe < pi_inp.txt
/*** pifast.bat ***\
pi_inp.txt is an input parameters file and looks like this
**** pi_inp.txt ****
0
0
4194304
512
0
/*** pi_inp.txt ***\
If you want to be bit more hifi about your cpu.
Google for rightmark cpu clock utility and install it. Using performance on demand settings you can setup your CPU to change speeds and voltages depending on cpu utilization (i know the cpu does this automatically).
But also you can use thermal throttling also as "idle throttling". So I enabled throttling at idle, Im using throttle levels 12.5%, 25%, 50%, 75% and 100%. This number means that how many of CPU cycles are used for computation and how much is used for idling with trhottle. So PLS remember to choose 100% if you want to use all the CPU power u got. 
I wont make guide about rightmark CPU clock utility, it has fine manual itself. And easy GUI. Some of the terms that there is (and TM1 and TM2 sensor or something I had to refer to manual).
To note, my computer works perfectly with CPU clock utility. But my bit older laptop with Pentium M and some Centrino sertified board does not.
Clock utility can set my cpu speed & throttle with my laptop, but it is conflicting with keyboard irq or something, because some times my keyb lose a key hit or two.
Hope this helps you speedFan fans. I'm going back to water cooling when I get my SCSI drives silenced.
- prc

Answer 1

Now with some pictures from my settings.
First before you setup, you can go to speeds tab to rename speed2 to eg. CPUFAN, tho this does not have any other effect than its easier to see from other speeds.
In temeperature tabs, I have chosen core1 and core2 temperatures to be those temperatures that speed2 can affect. As you can see, also core1 (and core2) have "desired" and "warning" temperatures set.
  http://koti.mbnet.fi/~prc/temp/Speedfan_temp.JPG
In Fans tab, I have unmarked all other fans than CPUFAN (before renaming speed2). I dont want to monitor other fans, also cpufan is onlyone that I can get RPM values.
  http://koti.mbnet.fi/~prc/temp/speedfan_fans.JPG
From speeds tab I have set that CPUFAN minimum speed is 25% and maximum is 100%. Before I had 0-100%, but I changed min value to 25% to give chipset a bit more airflow, as it is with passive cooling.
  http://koti.mbnet.fi/~prc/temp/speedfan_speeds.JPG
In advanced tab I have changed speed2 divisor to 8, and PWM2 mode to manual PWM control. This was originally something like thermal cruise or so, meaning it is BIOS controlled.
  http://koti.mbnet.fi/~prc/temp/speedfan_advanced.JPG
Here is picture of speedfan running so that there is not much CPU load. (ok the meter says over 40%, must be some of my over 20 applications running atm, but generally load stays under 10%).
  http://koti.mbnet.fi/~prc/temp/speedfan_noload.JPG
And here is picture of speedFan under load, running pifast on both cores.
  http://koti.mbnet.fi/~prc/temp/speedfan_load.JPG
And here is one picture to show, that the cpu fan really reacts also to manual controls.
  http://koti.mbnet.fi/~prc/temp/speedfan_manual.JPG
To note that if I enter speed 0% for my cpufan, it will still run about 1000 RPM, so motherboard won't stop it really. Of course fan minimum and maximum RPM depends on the fan. Some fans run over 5000 RPM (FYI).
My speedfan is version 4.32 beta 8. From BIOS I have enabled that smartfan or whatever setting, with target temperature around 50C. But speedfan will overrule this setting when it is set to "manual PWM control". I have left it enabled, so that my BIOS can control the fanspeed (and not run on 100% all the time) if for some reason I don't startup speedfan or it gets broken.
GL with setupping, hope you got it working, if not try to be bit more specific and lets see if theres something we can do for it.
Ah to note, to control fan you must use fan that uses the 4pin CPUfan connector, I'm not sure if the fan needs to have some chip on itself to be actually controlled. In amd boards, where fan connector is 3pin connector, you can control all fans. (if the cpufan is controllable). Dunno about Intel boards, this is first intel board for me, after my old P3.