I'm an EU newbie and this is the first 'real' game after tutorial. I started a war with Mughal and managed to siege Delhi (Mughal capitol and CoT) and get it surrender. I had also almost all the other Mughal colonies controlled by me.
Then I wanted to annex new colonies via peace negotiations, but Delhi wasn't on the list. So, what's the point of sieging a capitol if you can't get it? What I'm missing here? Is the only way to completely annex Mughal to start a war, get 3 colonies with peace negotiations, wait 5 years and then repeat the cycle? Our relations are -200 (lowest?) so I doubt of any diplomatic resolution.
I must say that the manual is pretty useless and gets me higly frustrated.
Please someone help me, thank you. 
Then I wanted to annex new colonies via peace negotiations, but Delhi wasn't on the list. So, what's the point of sieging a capitol if you can't get it? What I'm missing here? Is the only way to completely annex Mughal to start a war, get 3 colonies with peace negotiations, wait 5 years and then repeat the cycle? Our relations are -200 (lowest?) so I doubt of any diplomatic resolution.
I must say that the manual is pretty useless and gets me higly frustrated.