Set the idle mixture screws at 2-1/2 turns out from lightly seated for starters. Install spring, o-ring and washer on the idle screws, in that order.
These carbs do not have proper "chokes". They have cold enrichment valves. These valves do two things. First they introduce extra fuel, and second, they allow a little extra air around the throttle plates. The fuel added is in a higher proportion than the air, so the mixture is enriched, and the extra air increases the idle speed.
The pilot (low speed) jets and the associated passageways in the carbs are susceptible to clogging on engines that have sat for long periods of time. Cleaning them is vital to getting the bike to idle and accelerate properly. Don't use metal tools to clean the holes in the jets; you'll upset the flow rates. Also, the air bleeds in the sides of the pilot jets need to be clear.
With pod filters, you should probably have #42 pilots and #145 or #150 main jets. A 0.5mm shim under the needle might help, too, but worry about that (hesitation off idle) later.
This is a used engine, right? Do you know what model bike it came from? The extra coolant nipple makes me think it may have come from a different series, and may have different cams, in which case the jetting will be different.