For starters, I see your air cleaner hits against the frame, which will cause issues with the gas frothing in the carb. I had this same problem with my bike. If it is against the frame, it will vibrate it as well.
In my case, I had to use an offset intake, as my carb would not even fit in the frame. However, I also used a 24" bike as opposed to a 26", so that is a factor. A Shorty intake (12.99) should keep it clear of the seat tube, and should allow for a race carb to be applied.
Secondly, I recommend using rubber or pipe wrap foam where the engine mounts to the frame to reduce vibration. I went with the pipe wrap foam, you can buy it for about $4.00 or so (Duck brand, same as the tape), then I cut it with a utility knife as close as I could.
Lastly, Make sure those bolts are tight! I would recommend at least some Loc-tite, or Permatex Thread Locker, the blue stuff, not the red. Of course, you can also buy some lock nuts, which is what I did.
The lock nut may or may not require different studs, depending on how your is set up, and the nuts/bolts you buy.