Grab the shuttle (grab it with hands, grab it with hardlight, stab it, lasso it with my rope, whatever) and help it land. (If it's crash landing on water, I guess the correct term is ditch.)
You capture the shuttle with the containment gun and set it down in the area that pancaek's id destroyed.
Pan inches a bit closer to Miyamoto.
"Comrade! I really don't think that's the correct way to land an aircraft! I need to get these fucking planes out of the air, preferably without damaging the manips inside. Just, open your cosmos portal from before or something and dump them in space, but get these planes away from me, as far as you can!"
Stand near miyamoto, crawl underneath him and his cloak if things go topsy-turvy.
Get angry thoughts, tell Comrade Dimitri the above, eg. to get these planes away from me/here.
Open portals to send away as many shuttles as I can. Retreat into the mountain entryway to prevent shuttles donking me in the head if possible, otherwise just dodge.
Should the shuttles be disembarking troops of some kind, shoot them. If it instead seems they are suicide bombing, brace for impact (aka gogo protective cloak hiding), or try to dodge the attack by retreating to somewhere further away using portals.
For our gunships, see if they can shoot at their engines. Only take out a few though so they'll be forced to do emergency landing (as opposed to crashing and possibly activating the manip).
Together you manage to stop 9 of the 12. Or rather, redirect them or portal them away.
3 get through. Comrade physically tackles one of them to the ground at the last moment, bringing that number down to two, but still, they get through.
Where exactly is everyone...I know where pancaek and miya are, where Flint is, and Lars is still up on the wall, right? We'll assume he is.
The good news first. They disabled their automanips a few seconds before the crash, so those don't overload. The bad news is that the nukes they're carrying are still very active, and they're going off anywhere between 10 feet and a few hundred feet from all of the team.
Miya: The avatar is powerful. Very powerful indeed. And it can survive being nuked, even at this range. It rides the blast wave, hurled before it can disintegrate. It loses the cloak. It loses most of the armor. The restraint systems are failing. Miya is half conscious, dazed and disoriented. The avatar is pushing. It wants out.
Pancaek: Exo [1] Powerful though you may be, I think attempting to block a nuke is the definition of extenuating circumstances. Especially when already engaging in other actions. The good news is that you do have a white mask embedded in mythril so you survive. Bad news is that your body and everything you're carrying is vaporized and your mask gets flung straight over the mountain and out into the ocean where it promptly sinks.
Flint: You're the farthest from this and protected by a giant stone wall. You survive, as does your suit, but you are buried in rubble.
Lars:You aren't at the exact epicenter, but you are standing on top of the wall. The blast wave punts you off the wall and you end up falling from heaven like a radioactive meteor. The suit keeps you alive but you break your spine and paralyze both legs, the suit loses most of its armor and is badly damaged, functional, but only just barely.