What do you mean that? Can you give an example?
Like my previous sentence it took me couple of tries 'wuu fiican yahay' I originally wrote 'wuu fiicanyahay'

I was still waiting for your reply and you already replied, lol.
I see what you mean but it's very easy to spot the ending and beginning of another word. As you've also assumed it's not easy to differentiate that if your spoken Somali is a lot stronger than your written Somali.
In other words, try to read some Somali literature and write as well. The more you read and write the lesser your mistakes will be.