Well I was going to go on Microsoft paint and draw an arrow pointing to where the pain is radiating from on the back of my wrist however I just did a quick search for scaphoid bone on google images and there are hundreds of images with arrows pointing to the same place. So I'm guessing it's quite likely that is what could be causing it.
Edit: After taking another look at the scaphoid images this is a better image of where the pain is radiating from.
Now I think about it I recall a dodgy catch on a clean I did a week or two ago. Just messed up the catch and my wrist hurt afterwards enough for me to mention to my gym partner. Had forgotten about that. Also I was in a fight about 2 and a half weeks ago (an organised one) where I may have perhaps landed a punch off key or something; however I dont recall it being particularly painful that day. Similarly I did a bit of heavy padwork/sparring the week after that on a day when I had forgotten to bring my hand wraps. Could be a cause maybe. Not totally sure. Even if they didn't cause it they may have irritated it somewhat.
Also after 56x11's post it makes me wonder if it could have been caused by a couple of dodgy front squats I've done where one of my gyms shitty bent bars has rolled down shoulders and perhaps over-extended my wrist as I threw it off.
It could be any one of those but I'm sort of leaning towards the first.
As for things making it worse. Over extending or over flexing my wrist is pretty painful the former is way worse though. I can feel particular pain in the area pointed out above that radiates out laterally round the back of my wrist base of my thumb. Extending my hand back far enough for clean grip squats is impossible due to severe pain and seemingly a lack of flexibility, its moderately swollen around that area of the wrist. Also if I was to pull my thumb down slightly towards the inside of my wrist this replicates the pain and seems to irritate it quite a bit (yeah, wont be doing that again)
As for anything making it better, not found anything yet. Although I havent resorted to anti-inflammatory medicine yet.
I appreciate the sentiment mate, and I compeletely understand your point but I love clean grip front squats too much to give them up. I set myself a target of eventually hitting a clean grip 150kg front squat and I am determined to do so. The alternative methods will no doubt prove helpful though so thanks for those and thanks a lot for the response.