If you only have one HDD it should be setup as the primary master.
No, do NOT "refresh the CMOS". That will clear ALL the BIOS settings & reset them to the defaults, which means that any custom configuration will be lost. And if you know anything about the BIOS, you'd know that default settings are NOT the best performance settings.
If you don't know what dual booting is, I'm not gonna try to explain...you might try it...lol.
Get your HDD straightened around. You're gonna have to change the cables inside the case. The HDD should be connected to the primary channel, not the secondary, & it should be jumpered as master...don't use cable select.
BTW, what does any of this have to do with CPUs or overclocking?