sorry i didn't realize that pictures did not work!!! Sorry about that!!
So what do you think about the gap of the flang?? i think it should be okey!

 

i think it might be okay. since you have it, you can test fit it. torque down the middle bolt first then alternate sides. maybe use a piece of paper to see if the gap is still there if you can't tell.

 

What are you doing for a downpipe? The flanges have a tendency to warp when they're being welded. It's somewhat common, but definitely disconcerting.

 

getting custom downpipe, they because of the design the bolt will get way of the manifold, probably going to get a bolt that have thread to both side and slip it in and bolt it on!! it should be okey for the clearence!!