Over 100% Maximum Fequency on CPU, but only 10% usage.

After a VERY short while of using my PC, the CPU frequncy can reach 116%, but only 7-10% usage. This causes my PC to stutter and become very laggy for anywhere between 3 seconds and 10 seconds. This can happen twice in one minute or twice in one hour - it is completely random.
I don't even have to be doing anything strenuous.. I might be listening to music with nothing else going and it will happen, or I could be dual screening two games and it's fine.
At first I though it was my HDD, I replaced this and was fine for a few days, then it just went back to stuttering again, I have had this PC for about 18 months, and it started happening just after the warranty ran out. Any ideads? 
PC Spec:
Processor:
Intel Core i7 4770 3.4 GHz (up to 3.9 GHz turbo)
Memory:
Amount: 16 GB
Speed: PC3-12800 MB/sec
Type: DDR3-1600
GPU:
NVidia GeForce GTX 760
SSD:
240GB Corsair Force GS
Sequential Read Write
555 MB/s sequential read — 525 MB/s sequential write
Interface
SATA 6Gb/s
SSD Technology
MLC, Toggle NAND
Other HDD:
Seagate
Size: 2 TB
Interface: SATA
Rotational Speed: 7200 RPM
Motherboard:
MS-7826 (Kaili)
PC on HP Website

I understand the CS2 is probably not helping, but there is really a problem on other apps too - not only CS2 and those are universal.
Page ins/outs are currently 142257/71109 and i have not been using or even opening CS2 - just safari, itunes, What size , MSEntourage, VLC and moving some files.
I have taken some earlier advice on your posts regarding using multiple internal disks - so i moved itunes and iphoto libraries to a separate disk and also use that for scratch in CS2. The drives are 250GB WD and 250GB Seagate, and i am looking at replacing them with one or two 750GB WD RE2, although probably not in RAID ( dont want to complicate my life too much in one go !)
Overall i think the page ins/outs look high from my searching in other posts, but can't see why it would be overloaded when i normally dont use the CS2 that much ( only a hobby)
Also the private/var/vm directory has 3 swap files - two of 64 MB and one (Swapfile2) is 128MB, if that tells something else ?
looks like i will have to invest in 4GB more memory as well as the HDD's. i was confused with the apparent further lack of support in CS3 for 64 bit programming (?) although i dont know when that would be launched so soon after CS3
I have a case of a little knowledge ( which can be a dangerous thing!)
Message was edited by: grahams

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