SSD slowdown

[Blessed_again]

I recently moved my hardware from a cramped mid tower to a spacious full tower. Unfortunately in the transition my primary SSD with OS, reverted from 6g to 3G. The windows experience index dropped from 7.9 to 5.9. I assume I have the sata ports or bios settings wrong. I did't label the cables.
I presently have the primary in the top red intel sata port 6g. It works Ok but it is slower than it was before. I tried the red marvel port but it does't show up in the bios. The bios shows both of my SSD's showing up as gray and the other Three regular Hard drives as blue. I thought the SSD's would show up as red and the sata2 hard drives would show up as gray. I do not have any of the drives in a raid configuration . It has been over two years since my original build and do not remember the original settings. I believe the drivers listed for both SSD's are intel.
My hardware is MB, maximus IV extreme Z, primary SSD, Crucial M4 128gb 6g, 2nd SSD, Intel 160 gb.
1 TB black HD, 2TB black HD, 1 TB external HD. CPU, 3770k, 8Gb ddr3, Custom H20 cooling with 360 radiator, 1200w ps, GTX 770, Cosair 900D case
& Windows 7 ultimate OS.
Thanks. Any help or advice would be appreciated.

[HiVizMan]

You need to put the SSD into the Intel 6G port and all should be good.

[Blessed_again]

I believe I have the operating system SSD (Crucial M4 128gb) plugged into the Intel 6gb sata port. I used a 6gb sata cable and plugged it into the top red sata plug (2nd red plug, right of the gray plug and left of the red Marvell plug). I have selected AHCI in the bios.

[HiVizMan]

Basically a SSD can not revert to 3G it is not able to physically change its controller.

Your windows experience will read your mechanical hard drive too, and if that is slow that will be your lowest score. Run the WEI with only your SSD connected.