put them to .004 and verify the correct main jets. you have a left and a right and wouldnt be th first time ive seen high altitude jets put in. you also have 2 diodes that can cause issues like that between the coills unplug them and see how it runs
Check your valve adjustments. sounds like they are tight zero clearance and probably hard to start both hot and cold due to mavrick air being sucked in making it super lean. as the engine warms up cleances tend to open a bit and valves wil seat. belive clearances should be .004" on all four...