SATA 1 port or SER 1 port?? Help

If I'm building a new rig and all I'm installing for a hard drive is a 160GB Seagate SATA drive but am not going to be using RAID at all, should I use the SATA 1 port or the SER 1 port on the mobo? Does it matter?
And, do I need to load the drivers from both disks that came with the mobo or just the ones that apply to the particular port I use? The mobo came with a Promise 376/378 Driver floppy and a VT8237 Driver Floppy.
Here are some specs:
AMD 64 3200+
MSI K8T-NEO FIS2R
Seagate 160GB SATA hard drive
CD-ROM/DVD drive
I've been trying to build this computer for a friend for about two weeks and we've encountered some problems during Windows XP Pro installation. After what we thought was a successful install of XP and several days of use, we got an Unmountable Boot Volume blue screen as XP loaded. I ran diagnostic utilities for the hard drive which showed no problems with it.
The other day we did a fresh installation of XP but this time we received a Windows Logo Testing error message for the WinXP Promise SATA378 IDE Controller. We also got Device Installer errors for the diskdrive, CD-ROM and battery.
What's weird now is that the CD-Rom is not even listed as a drive in the My Computer tab. All it shows there is the C: hard drive and A: floppy drive. If we put a CD into the drive, the light comes on for a few seconds but nothing happens. Otherwise, I'm certain that the CD-rom drive itself is working properly.
Can anyone help??

Okay, I've been testing out the RAM for a couple of hours now on Memtest86 while tweaking the BIOS settings. The memory we have is 2x512 Mushkin 3200 Level 1.
So far, nothing has yielded perfect error-free test cycles in Memtest. I've had a few cycles where i got as little as 4 errors. Some full cycles yielded 6 errors, another one, 9. Some were as high as 8,500+.
I have not tested the individual RAM modules yet. I'll do that tomorrow.
This particular board seems to like the DDR333 setting better than DDR400 - at least as far as Memtest goes. I've tested mostly in Slots 1 and 2 and then in 1 and 3. When I put the sticks in Slots 2 and 3 I got a BSOD with some sort of Bad_Config_ message. I found this interesting since the mobo manual on page 2-11 lists Slots 2 and 3 at DDR333 as a recommended combination.
Also, for whatever it's worth, most if not all of the Memtest errors are occurring during Tests 5 and 7. I think the Memtest86 website notes this as being common among AMD64 CPUs.
Anyway, I have two specific questions:
1) Should I be tweaking the CAS latency setting in BIOS?? I know this is memory related but I don't even know what it does.
2) As far as Memtest goes, how good is good enough before I should consider RMA'ing a RAM module? Should I expect perfect error-free Memtest scores?? Should I give the system to my friend and see if he experiences any crashes? I'm not sure at what point to be satisfied that the memory we have is good or defective.
Thanks.

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If I can't get this working and return, I really do not want to get another 655 board. I have not read up yet on the (Canterwood 875P Chipset) boards from MSI. Has there been similar issues / problems with SATA Raid as the 655 has? Im thinking of just paying the restocking fee with NewEgg and going with an Intel Canterwood board. Sure, the overclocking is not as good as other manufacturers, but this is a work machine so it won't be OC anyway. I would rather go with stability. Any thoughts greatly appreciated.
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Dear all
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here are the configs,
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no service pad
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service timestamps log uptime
service password-encryption
hostname TK-BACKBONE-3550
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interface GigabitEthernet0/5
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interface GigabitEthernet0/6
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interface GigabitEthernet0/7
switchport trunk encapsulation dot1q
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switchport mode dynamic desirable
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service timestamps log uptime
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please post if you have better results
CrystalDiskMark 3.0.2 x64 (C) 2007-2013 hiyohiyo
* MB/s = 1,000,000 byte/s [SATA/300 = 300,000,000 byte/s]
Sequential Read : 471.836 MB/s
Sequential Write : 274.460 MB/s
Random Read 512KB : 181.330 MB/s
Random Write 512KB : 70.838 MB/s
Random Read 4KB (QD=1) : 12.992 MB/s [ 3172.0 IOPS]
Random Write 4KB (QD=1) : 13.544 MB/s [ 3306.5 IOPS]
Random Read 4KB (QD=32) : 58.236 MB/s [ 14217.7 IOPS]
Random Write 4KB (QD=32) : 13.899 MB/s [ 3393.3 IOPS]
Test : 1000 MB [C: 28.7% (34.1/118.7 GB)] (x5)
Date : 2013/08/05 0:07:05
OS : Windows 8 [6.2 Build 9200] (x64)
Marten

I have a GT70 0NE with a Super Raid setup and 2 x 119 GB SSD but I got much worse than you in 4KB (Queue Depth 1) test.
But read speed generally higher than your original result.
CrystalDiskMark 3.0.2 Shizuku Edition x64 (C) 2007-2013 hiyohiyo
Crystal Dew World : http://crystalmark.info/
* MB/s = 1,000,000 byte/s [SATA/300 = 300,000,000 byte/s]
Sequential Read : 830.621 MB/s
Sequential Write : 200.992 MB/s
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Random Write 4KB (QD=1) : 2.654 MB/s [ 648.0 IOPS]
Random Read 4KB (QD=32) : 235.678 MB/s [ 57538.5 IOPS]
Random Write 4KB (QD=32) : 33.457 MB/s [ 8168.1 IOPS]
Test : 1000 MB [C: 57.6% (137.0/237.7 GB)] (x5)
Date : 2013/08/14 8:34:24
OS : Windows 8 Professional [6.2 Build 9200] (x64)
Possibly I need to update IRST too. Funnily when I turned off antivirus and torrent speed is going down (really reduced speed) and comparable to yours.
EDIT:Retry again by waiting the disk temperature going down
CrystalDiskMark 3.0.2 Shizuku Edition x64 (C) 2007-2013 hiyohiyo
Crystal Dew World : http://crystalmark.info/
* MB/s = 1,000,000 byte/s [SATA/300 = 300,000,000 byte/s]
Sequential Read : 835.519 MB/s
Sequential Write : 172.378 MB/s
Random Read 512KB : 116.470 MB/s
Random Write 512KB : 96.834 MB/s
Random Read 4KB (QD=1) : 18.365 MB/s [ 4483.7 IOPS]
Random Write 4KB (QD=1) : 21.347 MB/s [ 5211.6 IOPS]
Random Read 4KB (QD=32) : 148.393 MB/s [ 36228.9 IOPS]
Random Write 4KB (QD=32) : 34.984 MB/s [ 8541.1 IOPS]
Test : 1000 MB [C: 57.6% (137.0/237.7 GB)] (x5)
Date : 2013/08/14 9:24:53
OS : Windows 8 Professional [6.2 Build 9200] (x64)

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