there are different ways to do it. just remember you don't have to have them perfectly flat, the band will pull them together.
#1. get a 3rd flange and lock the band(assume there's no plastic/rubber in the band)
#2. get fittings with longer tube, so your welds are further away from the flange.
#3. crank up the welder, higher amperage, faster welding speed and only weld about 1.5" at a time. dunk it in a bucket of cold water to cool it and weld again.
some times you can sit the fitting in a bowl(stainless steel bowl) of water after tacking it up, use the water to cool the parts. but it may cause hydrogen embrittlement.
btw, your weld looks kinda cold.
My two cents, Just clamp it. For the future clamp two together while welding.

i used a wide belt sander on all my Turbo/CC/WG flanges
some elbow grease and a sheet of sanding paper on a surface plate would probably work just as well
i did not use any gaskets (except a high temp metal one between turbo and exhaust manifold)
a exhaust/turbo fabricator told me to spray high temp exhaust paint on each surface before assembly ....
i dont have any leaks (and no chance of blowing a seal out) ... but i have only about 3000 miles on the turbo![]()
This is a 3" V-Band set up. It got ever so slightly warped during the weld up.
What is the best way to gently get a perfectly flat surface....Surface Plate with sand paper...chuck it up in a lathe......?
My two cents, Just clamp it. For the future clamp two together while welding.
I always used copper seal at those joints