Clearing the CMOS sets everything to default related to the motherboard.
I would look at your BIOS to see how they match up spec wise (MHz, Timings & Voltage) to your RAM specs. I would look to adjust if 1) they don't match and 2) you feel you are able to do so.
On the Fan Warning:
1) It is referring to your CPU fan V1
2) Yes, this is something you should be worried about since you said the fan doesn't spin. It should be spinning to provide better cooling, which is why your temps are high. I would first go into your BIOS and adjust your CPU fan to manual and set it to 50%. If it doesn't start to spin, it is time to look for a new HSF 🙁 (refer to your manual on how to adjust).
I agree... Tecmo Bowl was the best ever!! Without it, there would be no Madden IMO!! I played it till it's death on the Playstation 🙁